Title: Connect to Your 'Zoom' Data
Description: Facilitates making a connection to the 'Zoom' API and executing
various queries. You can use it to get data on 'Zoom' webinars and 'Zoom'
meetings. The 'Zoom' documentation is available at
<https://developers.zoom.us/docs/api/>. This package is
not supported by 'Zoom' (owner of the software).
Author: Chris Umphlett [aut, cre]
Maintainer: Chris Umphlett <christopher.umphlett@gmail.com>
Diff between zoomr versions 0.1.1 dated 2023-01-10 and 0.2.0 dated 2023-04-25
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/utils.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Basic Sequence Processing Tool for Biological Data
Description: Primarily created as an easy and understanding way to do basic sequences surrounding the central dogma of molecular biology.
Author: Ambu Vijayan [aut, cre] ,
J. Sreekumar [aut]
Maintainer: Ambu Vijayan <ambuvjyn@gmail.com>
Diff between baseq versions 0.1.0 dated 2023-03-22 and 0.1.1 dated 2023-04-25
baseq-0.1.0/baseq/R/read_fasta.R |only baseq-0.1.0/baseq/inst/extdata/sample.fasta |only baseq-0.1.0/baseq/man/read.fasta.Rd |only baseq-0.1.1/baseq/DESCRIPTION | 17 + baseq-0.1.1/baseq/MD5 | 85 ++++++--- baseq-0.1.1/baseq/NAMESPACE | 41 ++-- baseq-0.1.1/baseq/NEWS.md |only baseq-0.1.1/baseq/R/clean_DNA.R |only baseq-0.1.1/baseq/R/clean_DNA_sequence.R |only baseq-0.1.1/baseq/R/clean_RNA.R |only baseq-0.1.1/baseq/R/clean_RNA_sequence.R |only baseq-0.1.1/baseq/R/clean_sequence.R | 62 ++---- baseq-0.1.1/baseq/R/count_bases.R | 60 +++--- baseq-0.1.1/baseq/R/count_seq_pattern.R | 48 ++--- baseq-0.1.1/baseq/R/dna_to_protein.R | 158 ++++++++-------- baseq-0.1.1/baseq/R/dna_to_rna.R | 34 +-- baseq-0.1.1/baseq/R/fastq_to_fasta.R |only baseq-0.1.1/baseq/R/gc_content.R | 60 +++--- baseq-0.1.1/baseq/R/gc_content_file.R |only baseq-0.1.1/baseq/R/read_fasta_df.R |only baseq-0.1.1/baseq/R/read_fasta_list.R |only baseq-0.1.1/baseq/R/read_fastq_df.R |only baseq-0.1.1/baseq/R/read_fastq_list.R |only baseq-0.1.1/baseq/R/reverse_complement.R | 52 ++--- baseq-0.1.1/baseq/R/rna_reverse_complement.R | 52 ++--- baseq-0.1.1/baseq/R/rna_to_dna.R | 34 +-- baseq-0.1.1/baseq/R/rna_to_protein.R | 158 ++++++++-------- baseq-0.1.1/baseq/R/write_df_to_fasta.R |only baseq-0.1.1/baseq/R/write_df_to_fastq.R |only baseq-0.1.1/baseq/R/write_list_to_fasta.R |only baseq-0.1.1/baseq/R/write_list_to_fastq.R |only baseq-0.1.1/baseq/README.md | 169 ++++++++++++++++-- baseq-0.1.1/baseq/inst/extdata/sample2_fa.fasta |only baseq-0.1.1/baseq/inst/extdata/sample2_fa_clean.fasta |only baseq-0.1.1/baseq/inst/extdata/sample_fa.fasta |only baseq-0.1.1/baseq/inst/extdata/sample_fa_clean.fasta |only baseq-0.1.1/baseq/inst/extdata/sample_fq.fasta |only baseq-0.1.1/baseq/inst/extdata/sample_fq.fastq |only baseq-0.1.1/baseq/man/clean_DNA_file.Rd |only baseq-0.1.1/baseq/man/clean_DNA_sequence.Rd |only baseq-0.1.1/baseq/man/clean_RNA_file.Rd |only baseq-0.1.1/baseq/man/clean_RNA_sequence.Rd |only baseq-0.1.1/baseq/man/clean_sequence.Rd | 51 ++--- baseq-0.1.1/baseq/man/count_bases.Rd | 50 ++--- baseq-0.1.1/baseq/man/count_seq_pattern.Rd | 50 ++--- baseq-0.1.1/baseq/man/dna_to_protein.Rd | 78 ++++---- baseq-0.1.1/baseq/man/dna_to_rna.Rd | 44 ++-- baseq-0.1.1/baseq/man/fastq_to_fasta.Rd |only baseq-0.1.1/baseq/man/figures |only baseq-0.1.1/baseq/man/gc_content.Rd | 44 ++-- baseq-0.1.1/baseq/man/gc_content_file.Rd |only baseq-0.1.1/baseq/man/read.fasta_to_df.Rd |only baseq-0.1.1/baseq/man/read.fasta_to_list.Rd |only baseq-0.1.1/baseq/man/read.fastq_to_df.Rd |only baseq-0.1.1/baseq/man/read.fastq_to_list.Rd |only baseq-0.1.1/baseq/man/reverse_complement.Rd | 44 ++-- baseq-0.1.1/baseq/man/rna_reverse_complement.Rd | 44 ++-- baseq-0.1.1/baseq/man/rna_to_dna.Rd | 44 ++-- baseq-0.1.1/baseq/man/rna_to_protein.Rd | 78 ++++---- baseq-0.1.1/baseq/man/write.df_to_fasta.Rd |only baseq-0.1.1/baseq/man/write.df_to_fastq.Rd |only baseq-0.1.1/baseq/man/write.list_to_fasta.Rd |only baseq-0.1.1/baseq/man/write.list_to_fastq.Rd |only 63 files changed, 866 insertions(+), 691 deletions(-)
Title: Quality Report Generation for MaxQuant and mzTab Results
Description: Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the
MaxQuant software suite (from .txt files) or mzTab files (ideally from OpenMS 'QualityControl' tool).
Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format.
Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015)
<doi:10.1021/acs.jproteome.5b00780>.
Author: Chris Bielow [aut, cre],
Juliane Schmachtenberg [ctb],
Swenja Wagner [ctb],
Patricia Scheil [ctb],
Tom Waschischek [ctb],
Guido Mastrobuoni [dtc, rev]
Maintainer: Chris Bielow <chris.bielow@bsc.fu-berlin.de>
Diff between PTXQC versions 1.0.14 dated 2022-09-20 and 1.0.15 dated 2023-04-25
PTXQC-1.0.14/PTXQC/inst/cv |only PTXQC-1.0.14/PTXQC/man/CVDictionarySingleton.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCDateTime-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCanalysisSoftware-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCbaseQuality-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCcontrolledVocabulary-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCcvParameter-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCinputFile-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCmetadata-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCmzQC-class.Rd |only PTXQC-1.0.14/PTXQC/man/MzQCqualityMetric-class.Rd |only PTXQC-1.0.14/PTXQC/man/NULL_to_NA.Rd |only PTXQC-1.0.14/PTXQC/man/NULL_to_charNA.Rd |only PTXQC-1.0.14/PTXQC/man/fromDatatoMzQC.Rd |only PTXQC-1.0.14/PTXQC/man/getCVDictionary.Rd |only PTXQC-1.0.14/PTXQC/man/getCVTemplate.Rd |only PTXQC-1.0.14/PTXQC/man/getQualityMetricTemplate.Rd |only PTXQC-1.0.14/PTXQC/man/hasFileSuffix.Rd |only PTXQC-1.0.14/PTXQC/man/isUndefined.Rd |only PTXQC-1.0.14/PTXQC/man/isValidMzQC.Rd |only PTXQC-1.0.14/PTXQC/man/parseOBO.Rd |only PTXQC-1.0.14/PTXQC/man/removeSuffix.Rd |only PTXQC-1.0.14/PTXQC/man/suffixToCV.Rd |only PTXQC-1.0.14/PTXQC/man/writeMZQC.Rd |only PTXQC-1.0.15/PTXQC/DESCRIPTION | 16 PTXQC-1.0.15/PTXQC/MD5 | 77 - PTXQC-1.0.15/PTXQC/NAMESPACE | 27 PTXQC-1.0.15/PTXQC/NEWS | 20 PTXQC-1.0.15/PTXQC/R/MQDataReader.R | 21 PTXQC-1.0.15/PTXQC/R/MzQC_classes.R | 750 ---------- PTXQC-1.0.15/PTXQC/R/createReport.R | 23 PTXQC-1.0.15/PTXQC/R/fcn_misc.R | 50 PTXQC-1.0.15/PTXQC/R/fcn_plots.R | 10 PTXQC-1.0.15/PTXQC/R/mzQC.R | 198 -- PTXQC-1.0.15/PTXQC/R/qcMetric_EVD.R | 10 PTXQC-1.0.15/PTXQC/R/qcMetric_MSMS.R | 2 PTXQC-1.0.15/PTXQC/R/qcMetric_MSMSScans.R | 1 PTXQC-1.0.15/PTXQC/R/qcMetric_PAR.R | 2 PTXQC-1.0.15/PTXQC/README.md | 6 PTXQC-1.0.15/PTXQC/inst/doc/PTXQC-Basic_Guide_for_R_users.html | 19 PTXQC-1.0.15/PTXQC/inst/doc/PTXQC-CustomizeReport.html | 19 PTXQC-1.0.15/PTXQC/inst/doc/PTXQC-DragNDrop.html | 19 PTXQC-1.0.15/PTXQC/inst/doc/PTXQC-FAQ.html | 19 PTXQC-1.0.15/PTXQC/inst/doc/PTXQC-Input_And_Output_Data.Rmd | 2 PTXQC-1.0.15/PTXQC/inst/doc/PTXQC-Input_And_Output_Data.html | 21 PTXQC-1.0.15/PTXQC/inst/doc/PTXQC-ListOfMetrics.html | 36 PTXQC-1.0.15/PTXQC/inst/examples/report_ecoli_small.mzQC | 129 - PTXQC-1.0.15/PTXQC/inst/examples/report_v1.0.10__txt_5files_withMatch-100min.html | 2 PTXQC-1.0.15/PTXQC/man/MQDataReader-class.Rd | 6 PTXQC-1.0.15/PTXQC/man/plot_DataOverRT.Rd | 92 - PTXQC-1.0.15/PTXQC/vignettes/PTXQC-Input_And_Output_Data.Rmd | 2 51 files changed, 282 insertions(+), 1297 deletions(-)
Title: Mixture of Markov Chains with Support of Higher Orders and
Multiple Sequences
Description: Fit mixture of Markov chains of higher orders from multiple
sequences. It is also compatible with ordinary 1-component, 1-order or
single-sequence Markov chains. Various utility functions are provided
to derive transition patterns, transition probabilities per component
and component priors. In addition, print(), predict() and component
extracting/replacing methods are also defined as a convention of
mixture models.
Author: Xiurui Zhu [aut, cre]
Maintainer: Xiurui Zhu <zxr6@163.com>
Diff between markovmix versions 0.1.0 dated 2023-04-24 and 0.1.1 dated 2023-04-25
DESCRIPTION | 19 - MD5 | 21 - NAMESPACE | 2 NEWS.md | 18 + R/markov_mix_utils.R | 48 ++++ README.md | 372 ++++++++++++++++++++++++++++++++- man/Extract.MarkovMix.Rd |only man/get_prior.Rd | 14 + man/get_prob.Rd | 14 + man/get_states_mat.Rd | 14 + man/restate.Rd | 3 tests/testthat/test-markov_mix_utils.R | 18 + 12 files changed, 517 insertions(+), 26 deletions(-)
Title: MAnifold-Constrained Gaussian Process Inference
Description: Provides fast and accurate inference for the parameter estimation problem in Ordinary Differential
Equations, including the case when there are unobserved system components. Implements the MAGI method
(MAnifold-constrained Gaussian process Inference) of Yang, Wong, and Kou (2021) <doi:10.1073/pnas.2020397118>.
Author: Shihao Yang [aut, cre] ,
Samuel W.K. Wong [aut] ,
S.C. Kou [ctb, cph]
Maintainer: Shihao Yang <shihao.yang@isye.gatech.edu>
Diff between magi versions 1.2.1 dated 2022-12-19 and 1.2.2 dated 2023-04-25
DESCRIPTION | 10 +- MD5 | 40 +++++---- NAMESPACE | 2 R/dynamicalSystemModels.R | 2 R/magi-package.R | 31 +++++-- R/utilities.R | 85 ++++++++++++++++++++- R/visualization.R | 178 +++++++++++++++++++++++++++++++------------- R/wrapper.R | 31 ++++--- inst/doc/magi-vignette.html | 20 ++-- man/MagiSolver.Rd | 19 ++-- man/gpcov.Rd |only man/gpmean.Rd |only man/gpsmoothing.Rd | 2 man/is.magioutput.Rd | 3 man/plot.magioutput.Rd | 45 +++++++++-- man/setDiscretization.Rd | 4 man/summary.magioutput.Rd | 7 + man/testDynamicalModel.Rd | 2 src/MagiSolver.cpp | 49 ++++++++---- src/Makevars | 1 src/Rcppgpsmoothing.cpp | 21 ++++- src/tgtdistr.cpp | 77 +++++++++++++++++-- 22 files changed, 471 insertions(+), 158 deletions(-)
Title: ADaM in R Asset Library
Description: A toolbox for programming Clinical Data Interchange Standards Consortium
(CDISC) compliant Analysis Data Model (ADaM) datasets in R. ADaM datasets are a
mandatory part of any New Drug or Biologics License Application submitted to the
United States Food and Drug Administration (FDA). Analysis derivations are
implemented in accordance with the "Analysis Data Model Implementation Guide"
(CDISC Analysis Data Model Team, 2021, <https://www.cdisc.org/standards/foundational/adam/adamig-v1-3-release-package>).
Author: Ben Straub [aut, cre],
Stefan Bundfuss [aut],
Thomas Neitmann [aut],
Samia Kabi [aut],
Gordon Miller [aut],
Teckla Akinyi [aut],
Andrew Smith [aut],
Konstantina Koukourikou [aut],
Ross Farrugia [aut],
Eric Simms [aut],
Annie Yang [aut],
Robin Koeger [...truncated...]
Maintainer: Ben Straub <ben.x.straub@gsk.com>
Diff between admiral versions 0.10.1 dated 2023-03-14 and 0.10.2 dated 2023-04-25
DESCRIPTION | 16 ++++++++-------- MD5 | 8 ++++---- NEWS.md | 16 ++++++++++------ README.md | 4 ++-- man/admiral-package.Rd | 4 ++-- 5 files changed, 26 insertions(+), 22 deletions(-)
Title: Snowball Stemmers Based on the C 'libstemmer' UTF-8 Library
Description: An R interface to the C 'libstemmer' library that implements
Porter's word stemming algorithm for collapsing words to a common
root to aid comparison of vocabulary. Currently supported languages are
Arabic, Basque, Catalan, Danish, Dutch, English, Finnish, French, German, Greek,
Hindi, Hungarian, Indonesian, Irish, Italian, Lithuanian, Nepali,
Norwegian, Portuguese, Romanian, Russian, Spanish, Swedish, Tamil
and Turkish.
Author: Milan Bouchet-Valat [aut, cre]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>
Diff between SnowballC versions 0.7.0 dated 2020-04-01 and 0.7.1 dated 2023-04-25
DESCRIPTION | 13 +++++++------ MD5 | 8 ++++---- NEWS | 3 +++ src/SnowballC_init.c | 2 +- src/stem.c | 2 +- 5 files changed, 16 insertions(+), 12 deletions(-)
Title: 'rmarkdown' Extension for Formatted 'RJDemetra' Outputs
Description: Functions to have nice 'rmarkdown' outputs of the
seasonal and trading day adjustment models made with 'RJDemetra'.
Author: Alain Quartier-la-Tente [aut, cre]
Maintainer: Alain Quartier-la-Tente <alain.quartier@yahoo.fr>
Diff between rjdmarkdown versions 0.2.0 dated 2020-10-01 and 0.2.1 dated 2023-04-25
DESCRIPTION | 15 MD5 | 24 - NEWS.md | 6 README.md | 13 build/vignette.rds |binary inst/doc/rjdmarkdown-html.R | 11 inst/doc/rjdmarkdown-html.Rmd | 11 inst/doc/rjdmarkdown-html.html | 817 ++++++++++++++++++++++++----------------- inst/doc/rjdmarkdown-pdf.R | 9 inst/doc/rjdmarkdown-pdf.Rmd | 12 inst/doc/rjdmarkdown-pdf.pdf |binary vignettes/rjdmarkdown-html.Rmd | 11 vignettes/rjdmarkdown-pdf.Rmd | 12 13 files changed, 549 insertions(+), 392 deletions(-)
Title: Manipulate Time Series of Palaeoclimate Reconstructions
Description: Methods to easily extract and manipulate palaeoclimate
reconstructions for ecological and anthropological analyses, as described
in Leonardi et al. (2023) <doi:10.1111/ecog.06481>.
Author: Michela Leonardi [aut],
Emily Y. Hallet [ctb],
Robert Beyer [ctb],
Mario Krapp [ctb],
Andrea Manica [aut, cre]
Maintainer: Andrea Manica <am315@cam.ac.uk>
Diff between pastclim versions 1.2.3 dated 2023-01-06 and 1.2.4 dated 2023-04-25
pastclim-1.2.3/pastclim/R/location_series_old.R |only pastclim-1.2.3/pastclim/inst/extdata/example_climate_v1.2.3.nc |only pastclim-1.2.3/pastclim/man/location_series_old.Rd |only pastclim-1.2.4/pastclim/DESCRIPTION | 14 pastclim-1.2.4/pastclim/MD5 | 182 + pastclim-1.2.4/pastclim/NAMESPACE | 6 pastclim-1.2.4/pastclim/NEWS.md | 3 pastclim-1.2.4/pastclim/R/check_var_downloaded.R | 2 pastclim-1.2.4/pastclim/R/clean_data_path.R | 2 pastclim-1.2.4/pastclim/R/data.R | 8 pastclim-1.2.4/pastclim/R/df_from_region_series.R | 6 pastclim-1.2.4/pastclim/R/df_from_region_slice.R | 8 pastclim-1.2.4/pastclim/R/distance_from_sea.R |only pastclim-1.2.4/pastclim/R/download_dataset.R | 4 pastclim-1.2.4/pastclim/R/get_biome_classes.R | 3 pastclim-1.2.4/pastclim/R/get_data_path.R | 2 pastclim-1.2.4/pastclim/R/get_dataset_info.R | 2 pastclim-1.2.4/pastclim/R/get_file_for_dataset.R | 4 pastclim-1.2.4/pastclim/R/get_ice_mask.R | 4 pastclim-1.2.4/pastclim/R/get_land_mask.R | 4 pastclim-1.2.4/pastclim/R/get_mis_time_steps.R | 4 pastclim-1.2.4/pastclim/R/get_time_steps.R | 7 pastclim-1.2.4/pastclim/R/get_vars_for_dataset.R | 2 pastclim-1.2.4/pastclim/R/is_region_series.R | 8 pastclim-1.2.4/pastclim/R/load_dataset_list.R | 2 pastclim-1.2.4/pastclim/R/location_series.R | 16 pastclim-1.2.4/pastclim/R/location_slice.R | 10 pastclim-1.2.4/pastclim/R/pastclim.R |only pastclim-1.2.4/pastclim/R/region_series.R | 10 pastclim-1.2.4/pastclim/R/region_slice.R | 16 pastclim-1.2.4/pastclim/R/sample_region_series.R | 28 pastclim-1.2.4/pastclim/R/sample_region_slice.R | 14 pastclim-1.2.4/pastclim/R/set_data_path.R | 2 pastclim-1.2.4/pastclim/R/slice_region_series.R | 10 pastclim-1.2.4/pastclim/R/sysdata.rda |binary pastclim-1.2.4/pastclim/R/time_bp.R | 55 pastclim-1.2.4/pastclim/R/var_labels.R | 8 pastclim-1.2.4/pastclim/README.md | 49 pastclim-1.2.4/pastclim/build/partial.rdb |binary pastclim-1.2.4/pastclim/build/vignette.rds |binary pastclim-1.2.4/pastclim/inst/CITATION | 33 pastclim-1.2.4/pastclim/inst/WORDLIST |only pastclim-1.2.4/pastclim/inst/doc/a0_pastclim_overview.R | 91 pastclim-1.2.4/pastclim/inst/doc/a0_pastclim_overview.Rmd | 545 +++-- pastclim-1.2.4/pastclim/inst/doc/a0_pastclim_overview.html | 939 +++++----- pastclim-1.2.4/pastclim/inst/doc/a1_available_datasets.html | 6 pastclim-1.2.4/pastclim/inst/doc/a2_custom_datasets.R | 18 pastclim-1.2.4/pastclim/inst/doc/a2_custom_datasets.Rmd | 25 pastclim-1.2.4/pastclim/inst/doc/a2_custom_datasets.html | 89 pastclim-1.2.4/pastclim/inst/extdata/dataset_list_included.csv | 8 pastclim-1.2.4/pastclim/inst/extdata/example_climate_v1.3.0.nc |only pastclim-1.2.4/pastclim/man/Beyer2020.Rd | 8 pastclim-1.2.4/pastclim/man/Krapp2021.Rd | 6 pastclim-1.2.4/pastclim/man/check_dataset_path.Rd | 4 pastclim-1.2.4/pastclim/man/check_var_downloaded.Rd | 4 pastclim-1.2.4/pastclim/man/clean_data_path.Rd | 2 pastclim-1.2.4/pastclim/man/climate_for_locations.Rd | 4 pastclim-1.2.4/pastclim/man/climate_for_time_slice.Rd | 6 pastclim-1.2.4/pastclim/man/df_from_region_series.Rd | 6 pastclim-1.2.4/pastclim/man/df_from_region_slice.Rd | 10 pastclim-1.2.4/pastclim/man/distance_from_sea.Rd |only pastclim-1.2.4/pastclim/man/download_dataset.Rd | 6 pastclim-1.2.4/pastclim/man/get_available_datasets.Rd | 2 pastclim-1.2.4/pastclim/man/get_biome_classes.Rd | 2 pastclim-1.2.4/pastclim/man/get_data_path.Rd | 10 pastclim-1.2.4/pastclim/man/get_dataset_info.Rd | 2 pastclim-1.2.4/pastclim/man/get_file_for_dataset.Rd | 4 pastclim-1.2.4/pastclim/man/get_ice_mask.Rd | 4 pastclim-1.2.4/pastclim/man/get_land_mask.Rd | 4 pastclim-1.2.4/pastclim/man/get_mis_time_steps.Rd | 4 pastclim-1.2.4/pastclim/man/get_time_steps.Rd | 2 pastclim-1.2.4/pastclim/man/get_vars_for_dataset.Rd | 4 pastclim-1.2.4/pastclim/man/is_region_series.Rd | 12 pastclim-1.2.4/pastclim/man/load_dataset_list.Rd | 6 pastclim-1.2.4/pastclim/man/location_series.Rd | 32 pastclim-1.2.4/pastclim/man/location_slice.Rd | 24 pastclim-1.2.4/pastclim/man/mis_boundaries.Rd | 6 pastclim-1.2.4/pastclim/man/pastclim.Rd |only pastclim-1.2.4/pastclim/man/region_outline.Rd | 6 pastclim-1.2.4/pastclim/man/region_outline_union.Rd | 6 pastclim-1.2.4/pastclim/man/region_series.Rd | 12 pastclim-1.2.4/pastclim/man/region_slice.Rd | 12 pastclim-1.2.4/pastclim/man/sample_region_series.Rd | 14 pastclim-1.2.4/pastclim/man/sample_region_slice.Rd | 14 pastclim-1.2.4/pastclim/man/sample_rs_fixed.Rd | 8 pastclim-1.2.4/pastclim/man/sample_rs_variable.Rd | 8 pastclim-1.2.4/pastclim/man/set_data_path.Rd | 4 pastclim-1.2.4/pastclim/man/slice_region_series.Rd | 8 pastclim-1.2.4/pastclim/man/time_bp.Rd | 24 pastclim-1.2.4/pastclim/man/time_series_for_locations.Rd | 12 pastclim-1.2.4/pastclim/man/update_dataset_list.Rd | 4 pastclim-1.2.4/pastclim/man/validate_nc.Rd | 2 pastclim-1.2.4/pastclim/man/var_labels.Rd | 12 pastclim-1.2.4/pastclim/tests/spelling.R |only pastclim-1.2.4/pastclim/tests/testthat/test_distance_from_sea.R |only pastclim-1.2.4/pastclim/tests/testthat/test_time_bp.R |only pastclim-1.2.4/pastclim/vignettes/a0_pastclim_overview.Rmd | 545 +++-- pastclim-1.2.4/pastclim/vignettes/a2_custom_datasets.Rmd | 25 98 files changed, 1786 insertions(+), 1353 deletions(-)
Title: Multi-Scale Geomorphometric Terrain Attributes
Description: Calculates multi-scale geomorphometric terrain attributes from regularly gridded digital terrain models using a variable focal windows size (Misiuk et al. (2021) <doi:10.1080/01490419.2021.1925789>; Wilson et al. (2007) <doi:10.1080/01490410701295962>; Wood (1996) <https://hdl.handle.net/2381/34503>).
Author: Alexander Ilich [aut, cre] ,
Vincent Lecours [aut],
Benjamin Misiuk [aut],
Steven Murawski [aut]
Maintainer: Alexander Ilich <ailich@usf.edu>
Diff between MultiscaleDTM versions 0.7.1 dated 2023-04-18 and 0.8 dated 2023-04-25
MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit01.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit02.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit03.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit04.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit05.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit06.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit07.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit08.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit09.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit10.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit11.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/qfit12.png |only MultiscaleDTM-0.7.1/MultiscaleDTM/man/figures/test.png |only MultiscaleDTM-0.8/MultiscaleDTM/DESCRIPTION | 6 MultiscaleDTM-0.8/MultiscaleDTM/MD5 | 61 ++--- MultiscaleDTM-0.8/MultiscaleDTM/NAMESPACE | 55 ++-- MultiscaleDTM-0.8/MultiscaleDTM/R/AdjSD.R | 11 MultiscaleDTM-0.8/MultiscaleDTM/R/Qfit.R | 31 +- MultiscaleDTM-0.8/MultiscaleDTM/R/RcppExports.R | 32 ++ MultiscaleDTM-0.8/MultiscaleDTM/R/SAPA.R | 4 MultiscaleDTM-0.8/MultiscaleDTM/R/SlpAsp.R | 42 ++- MultiscaleDTM-0.8/MultiscaleDTM/R/VRM.R | 12 - MultiscaleDTM-0.8/MultiscaleDTM/R/erupt.R |only MultiscaleDTM-0.8/MultiscaleDTM/README.md | 12 - MultiscaleDTM-0.8/MultiscaleDTM/inst/doc/README.R | 12 - MultiscaleDTM-0.8/MultiscaleDTM/inst/doc/README.html | 14 - MultiscaleDTM-0.8/MultiscaleDTM/man/SlpAsp.Rd | 7 MultiscaleDTM-0.8/MultiscaleDTM/man/VRM.Rd | 5 MultiscaleDTM-0.8/MultiscaleDTM/man/erupt.Rd |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/qmetrics.jpg |binary MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit01.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit02.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit03.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit04.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit05.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit06.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit07.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit08.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit09.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit10.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit11.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/figures/sub_qfit12.png |only MultiscaleDTM-0.8/MultiscaleDTM/man/fragments/README_Frag.Rmd | 16 - MultiscaleDTM-0.8/MultiscaleDTM/src/RcppExports.cpp | 112 ++++++++-- MultiscaleDTM-0.8/MultiscaleDTM/src/cpp_code.cpp | 110 ++++++++- 45 files changed, 395 insertions(+), 147 deletions(-)
Title: 'ggplot2' Extension for Seasonal and Trading Day Adjustment with
'RJDemetra'
Description: Provides 'ggplot2' functions to return the results of seasonal and trading day adjustment
made by 'RJDemetra'. 'RJDemetra' is an 'R' interface around 'JDemetra+' (<https://github.com/jdemetra/jdemetra-app>),
the seasonal adjustment software officially recommended to the members of the European Statistical System and
the European System of Central Banks.
Author: Alain Quartier-la-Tente [aut, cre]
Maintainer: Alain Quartier-la-Tente <alain.quartier@yahoo.fr>
Diff between ggdemetra versions 0.2.3 dated 2022-11-11 and 0.2.5 dated 2023-04-25
DESCRIPTION | 10 +-- MD5 | 16 +++-- NAMESPACE | 22 +++++++ NEWS.md | 6 ++ R/ipi_c_eu.R | 2 R/siratio.R |only README.md | 2 inst/doc/ggdemetra.html | 140 ++++++++++++++++++++++++++---------------------- man/ipi_c_eu.Rd | 2 man/siratio.Rd |only 10 files changed, 122 insertions(+), 78 deletions(-)
Title: Distributed Gaussian Process Calculations
Description: Distributes Gaussian process calculations across nodes
in a distributed memory setting, using Rmpi. The bigGP class
provides high-level methods for maximum likelihood with normal data,
prediction, calculation of uncertainty (i.e., posterior covariance
calculations), and simulation of realizations. In addition, bigGP
provides an API for basic matrix calculations with distributed
covariance matrices, including Cholesky decomposition, back/forwardsolve,
crossproduct, and matrix multiplication.
Author: Christopher Paciorek [aut, cre],
Benjamin Lipshitz [aut],
Prabhat [ctb],
Cari Kaufman [ctb],
Tina Zhuo [ctb],
Rollin Thomas [ctb]
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between bigGP versions 0.1-7 dated 2021-10-30 and 0.1.8 dated 2023-04-25
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS | 6 ++++++ R/collectDistribute.R | 14 +++++++------- R/distributedComputation.R | 18 +++++++++--------- R/krigeProblem.R | 4 ++-- build/partial.rdb |binary data/SN2011fe.rda |binary inst/CITATION | 15 ++++++++------- man/remoteCalc.Rd | 2 +- man/remoteCrossProdMatSelf.Rd | 2 +- src/lib.c | 2 +- src/lib.h | 2 +- 13 files changed, 52 insertions(+), 45 deletions(-)
Title: Robust Confidence Intervals for Standardized Regression
Coefficients
Description: Generates robust confidence intervals for standardized regression coefficients
using heteroskedasticity-consistent standard errors for models fitted by lm()
as described in Dudgeon (2017) <doi:10.1007/s11336-017-9563-z>.
A description of the package and code examples
are presented in Pesigan, Sun, and Cheung (2023) <doi:10.1080/00273171.2023.2201277>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaSandwich versions 1.0.3 dated 2022-12-17 and 1.0.4 dated 2023-04-25
betaSandwich-1.0.3/betaSandwich/R/betaSandwich-acov-mvn-dot.R |only betaSandwich-1.0.3/betaSandwich/R/betaSandwich-cov-mvn-dot.R |only betaSandwich-1.0.3/betaSandwich/R/betaSandwich-methods.R |only betaSandwich-1.0.3/betaSandwich/R/betaSandwich-nas1982.R |only betaSandwich-1.0.3/betaSandwich/R/betaSandwich-process-lm-dot.R |only betaSandwich-1.0.3/betaSandwich/tests/testthat/test-betaSandwich-beta-adf.R |only betaSandwich-1.0.3/betaSandwich/tests/testthat/test-betaSandwich-beta-hc.R |only betaSandwich-1.0.3/betaSandwich/tests/testthat/test-betaSandwich-beta-mvn.R |only betaSandwich-1.0.3/betaSandwich/tests/testthat/test-betaSandwich-methods.R |only betaSandwich-1.0.4/betaSandwich/DESCRIPTION | 8 betaSandwich-1.0.4/betaSandwich/LICENSE | 2 betaSandwich-1.0.4/betaSandwich/MD5 | 90 ++++-- betaSandwich-1.0.4/betaSandwich/NAMESPACE | 12 betaSandwich-1.0.4/betaSandwich/NEWS.md | 8 betaSandwich-1.0.4/betaSandwich/R/betaSandwich-acov-hc-dot.R | 3 betaSandwich-1.0.4/betaSandwich/R/betaSandwich-acov-sem-inverse-dot.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-beta-adf.R | 139 ++++++---- betaSandwich-1.0.4/betaSandwich/R/betaSandwich-beta-ci-dot.R | 19 + betaSandwich-1.0.4/betaSandwich/R/betaSandwich-beta-hc.R | 119 +++++--- betaSandwich-1.0.4/betaSandwich/R/betaSandwich-beta-mvn.R | 112 +++++--- betaSandwich-1.0.4/betaSandwich/R/betaSandwich-diff-beta-ci-dot.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-diff-beta-sandwich.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-jacobian-diff-betastar-wrt-betastar-dot.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-methods-beta-sandwich.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-methods-diff-beta-sandwich.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-methods-r-sq-beta-sandwich.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-r-sq-beta-sandwich.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-r-sq-ci-dot.R |only betaSandwich-1.0.4/betaSandwich/R/betaSandwich-r-sq-vcov-dot.R |only betaSandwich-1.0.4/betaSandwich/R/dataSets-nas1982.R |only betaSandwich-1.0.4/betaSandwich/R/processLM-dif-dot.R |only betaSandwich-1.0.4/betaSandwich/R/processLM-process-lm-dot.R |only betaSandwich-1.0.4/betaSandwich/R/strRegression-beta-star-of-rho-dot.R | 37 ++ betaSandwich-1.0.4/betaSandwich/R/strRegression-jacobian-vech-sigma-wrt-theta-dot.R |only betaSandwich-1.0.4/betaSandwich/R/strRegression-theta-index-dot.R |only betaSandwich-1.0.4/betaSandwich/build/partial.rdb |binary betaSandwich-1.0.4/betaSandwich/data/nas1982.rda |binary betaSandwich-1.0.4/betaSandwich/inst/CITATION | 62 ++-- betaSandwich-1.0.4/betaSandwich/man/BetaADF.Rd | 56 +++- betaSandwich-1.0.4/betaSandwich/man/BetaHC.Rd | 41 ++ betaSandwich-1.0.4/betaSandwich/man/BetaN.Rd | 51 ++- betaSandwich-1.0.4/betaSandwich/man/DiffBetaSandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/RSqBetaSandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/betaSandwich-package.Rd | 2 betaSandwich-1.0.4/betaSandwich/man/coef.betasandwich.Rd | 4 betaSandwich-1.0.4/betaSandwich/man/coef.diffbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/coef.rsqbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/confint.betasandwich.Rd | 8 betaSandwich-1.0.4/betaSandwich/man/confint.diffbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/confint.rsqbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/nas1982.Rd | 2 betaSandwich-1.0.4/betaSandwich/man/print.betasandwich.Rd | 17 - betaSandwich-1.0.4/betaSandwich/man/print.diffbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/print.rsqbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/summary.betasandwich.Rd | 17 - betaSandwich-1.0.4/betaSandwich/man/summary.diffbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/summary.rsqbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/vcov.betasandwich.Rd | 11 betaSandwich-1.0.4/betaSandwich/man/vcov.diffbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/man/vcov.rsqbetasandwich.Rd |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-beta-sandwich-adf.R |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-beta-sandwich-hc.R |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-beta-sandwich-methods.R |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-beta-sandwich-mvn.R |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-diff-beta-sandwich-methods.R |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-diff-beta-sandwich.R |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-r-sq-beta-sandwich-methods.R |only betaSandwich-1.0.4/betaSandwich/tests/testthat/test-betaSandwich-r-sq-beta-sandwich.R |only 68 files changed, 566 insertions(+), 254 deletions(-)
Title: Confidence Intervals for Standardized Regression Coefficients
Description: Generates confidence intervals for standardized regression coefficients
using delta method standard errors for models fitted by lm()
as described in Yuan and Chan (2011) <doi:10.1007/s11336-011-9224-6>
and Jones and Waller (2015) <doi:10.1007/s11336-013-9380-y>.
A description of the package and code examples
are presented in Pesigan, Sun, and Cheung (2023) <doi:10.1080/00273171.2023.2201277>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaDelta versions 1.0.0 dated 2022-12-19 and 1.0.1 dated 2023-04-25
betaDelta-1.0.0/betaDelta/R/betaDelta-acov-dot.R |only betaDelta-1.0.0/betaDelta/R/betaDelta-methods.R |only betaDelta-1.0.0/betaDelta/R/betaSandwich-nas1982.R |only betaDelta-1.0.0/betaDelta/R/betaSandwich-process-lm-dot.R |only betaDelta-1.0.0/betaDelta/tests/testthat/test-betaDelta-beta-adf.R |only betaDelta-1.0.0/betaDelta/tests/testthat/test-betaDelta-beta-mvn.R |only betaDelta-1.0.0/betaDelta/tests/testthat/test-betaDelta-methods.R |only betaDelta-1.0.1/betaDelta/DESCRIPTION | 8 betaDelta-1.0.1/betaDelta/LICENSE | 2 betaDelta-1.0.1/betaDelta/MD5 | 64 ++-- betaDelta-1.0.1/betaDelta/NAMESPACE | 6 betaDelta-1.0.1/betaDelta/NEWS.md | 4 betaDelta-1.0.1/betaDelta/R/betaDelta-beta-ci-dot.R | 17 - betaDelta-1.0.1/betaDelta/R/betaDelta-beta-delta.R | 138 ++++------ betaDelta-1.0.1/betaDelta/R/betaDelta-diff-beta-ci-dot.R |only betaDelta-1.0.1/betaDelta/R/betaDelta-diff-beta-delta.R |only betaDelta-1.0.1/betaDelta/R/betaDelta-gamma-dot.R |only betaDelta-1.0.1/betaDelta/R/betaDelta-methods-beta-delta.R |only betaDelta-1.0.1/betaDelta/R/betaDelta-methods-diff-beta-delta.R |only betaDelta-1.0.1/betaDelta/R/betaSandwich-jacobian-diff-betastar-wrt-betastar-dot.R |only betaDelta-1.0.1/betaDelta/R/dataSets-nas1982.R |only betaDelta-1.0.1/betaDelta/R/deltaMethod-acov-delta.R |only betaDelta-1.0.1/betaDelta/R/processLM-dif-dot.R |only betaDelta-1.0.1/betaDelta/R/processLM-process-lm-dot.R |only betaDelta-1.0.1/betaDelta/R/strRegression-beta-star-of-rho-dot.R | 37 ++ betaDelta-1.0.1/betaDelta/build/partial.rdb |binary betaDelta-1.0.1/betaDelta/data/nas1982.rda |binary betaDelta-1.0.1/betaDelta/inst/CITATION | 62 ++-- betaDelta-1.0.1/betaDelta/man/BetaDelta.Rd | 40 ++ betaDelta-1.0.1/betaDelta/man/DiffBetaDelta.Rd |only betaDelta-1.0.1/betaDelta/man/betaDelta-package.Rd | 2 betaDelta-1.0.1/betaDelta/man/coef.betadelta.Rd | 2 betaDelta-1.0.1/betaDelta/man/coef.diffbetadelta.Rd |only betaDelta-1.0.1/betaDelta/man/confint.betadelta.Rd | 2 betaDelta-1.0.1/betaDelta/man/confint.diffbetadelta.Rd |only betaDelta-1.0.1/betaDelta/man/nas1982.Rd | 2 betaDelta-1.0.1/betaDelta/man/print.betadelta.Rd | 11 betaDelta-1.0.1/betaDelta/man/print.diffbetadelta.Rd |only betaDelta-1.0.1/betaDelta/man/summary.betadelta.Rd | 11 betaDelta-1.0.1/betaDelta/man/summary.diffbetadelta.Rd |only betaDelta-1.0.1/betaDelta/man/vcov.betadelta.Rd | 5 betaDelta-1.0.1/betaDelta/man/vcov.diffbetadelta.Rd |only betaDelta-1.0.1/betaDelta/tests/testthat/test-betaDelta-beta-delta-adf.R |only betaDelta-1.0.1/betaDelta/tests/testthat/test-betaDelta-beta-delta-methods.R |only betaDelta-1.0.1/betaDelta/tests/testthat/test-betaDelta-beta-delta-mvn.R |only betaDelta-1.0.1/betaDelta/tests/testthat/test-betaDelta-diff-beta-delta-methods.R |only betaDelta-1.0.1/betaDelta/tests/testthat/test-betaDelta-diff-beta-delta.R |only 47 files changed, 252 insertions(+), 161 deletions(-)
Title: An Implementation of Matrix Mathematics
Description: An implementation of matrix mathematics wherein operations are performed "by name."
Author: Matthew Heun [aut, cre]
Maintainer: Matthew Heun <matthew.heun@me.com>
Diff between matsbyname versions 0.6.0 dated 2023-03-04 and 0.6.1 dated 2023-04-25
DESCRIPTION | 8 ++-- MD5 | 22 +++++------ NEWS.md | 14 ++++++- R/Binary.R | 23 +++++++----- R/utilities_Matrix.R | 2 - build/vignette.rds |binary inst/CITATION | 4 +- inst/doc/aggregation-vignette.html | 70 +++++++++++++++++++------------------ inst/doc/applybyname-vignette.html | 4 +- inst/doc/matsbyname.html | 4 +- man/equal_byname.Rd | 15 +++++-- tests/testthat/test_Binary.R | 10 ++++- 12 files changed, 107 insertions(+), 69 deletions(-)
Title: GLCM Textures of Raster Layers
Description: Calculates grey level co-occurrence matrix (GLCM) based texture measures (Hall-Beyer (2017) <https://prism.ucalgary.ca/bitstream/handle/1880/51900/texture%20tutorial%20v%203_0%20180206.pdf>; Haralick et al. (1973) <doi:10.1109/TSMC.1973.4309314>) of raster layers using a sliding rectangular window. It also includes functions to quantize a raster into grey levels as well as tabulate a glcm and calculate glcm texture metrics for a matrix.
Author: Alexander Ilich [aut, cre]
Maintainer: Alexander Ilich <ailich@usf.edu>
Diff between GLCMTextures versions 0.3.7 dated 2023-01-30 and 0.3.8 dated 2023-04-25
GLCMTextures-0.3.7/GLCMTextures/man/figures/README-unnamed-chunk-10-1.png |only GLCMTextures-0.3.7/GLCMTextures/man/figures/README-unnamed-chunk-11-1.png |only GLCMTextures-0.3.7/GLCMTextures/man/figures/README-unnamed-chunk-13-1.png |only GLCMTextures-0.3.7/GLCMTextures/man/figures/README-unnamed-chunk-16-1.png |only GLCMTextures-0.3.7/GLCMTextures/man/figures/README-unnamed-chunk-18-1.png |only GLCMTextures-0.3.8/GLCMTextures/DESCRIPTION | 7 GLCMTextures-0.3.8/GLCMTextures/MD5 | 22 + GLCMTextures-0.3.8/GLCMTextures/README.md | 131 +++++----- GLCMTextures-0.3.8/GLCMTextures/build |only GLCMTextures-0.3.8/GLCMTextures/inst/CITATION | 2 GLCMTextures-0.3.8/GLCMTextures/inst/doc |only GLCMTextures-0.3.8/GLCMTextures/man/figures/README-elevation-1.png |only GLCMTextures-0.3.8/GLCMTextures/man/figures/README-rq_ep-1.png |only GLCMTextures-0.3.8/GLCMTextures/man/figures/README-rq_er-1.png |only GLCMTextures-0.3.8/GLCMTextures/man/figures/README-textures1-1.png |only GLCMTextures-0.3.8/GLCMTextures/man/figures/README-textures3-1.png |only GLCMTextures-0.3.8/GLCMTextures/man/fragments |only GLCMTextures-0.3.8/GLCMTextures/vignettes |only 18 files changed, 89 insertions(+), 73 deletions(-)
Title: Description of a Data Frame
Description: Helps to describe a data frame in hand. Has been developed during PhD work of the maintainer. More information may be obtained from Garai and Paul (2023) <doi:10.1016/j.iswa.2023.200202>.
Author: Mr. Sandip Garai [aut, cre],
Dr. Ranjit Kumar Paul [aut]
Maintainer: Mr. Sandip Garai <sandipnicksandy@gmail.com>
Diff between DescribeDF versions 0.1.1 dated 2023-04-12 and 0.2.0 dated 2023-04-25
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/descriptiondf.R | 21 +++++++++++++++------ 3 files changed, 20 insertions(+), 11 deletions(-)
Title: Create Custom Plots for Viewing Genetic Association Results
Description: A collection of functions for visualizing,exploring and annotating genetic association results.Association results from multiple traits can be viewed simultaneously along with gene annotation, over the entire genome (Manhattan plot) or in the more detailed regional view.
Author: Thorhildur Juliusdottir [cph, aut, cre],
Andri Stefansson [aut]
Maintainer: Thorhildur Juliusdottir <totajuliusd@gmail.com>
Diff between topr versions 1.1.4 dated 2023-03-09 and 1.1.5 dated 2023-04-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 3 +++ R/regionplot.R | 2 ++ R/setters_and_getters.R | 2 ++ 5 files changed, 14 insertions(+), 7 deletions(-)
Title: Operationalizing Social Determinants of Health Data for
Researchers
Description: Accesses raw data via API and calculates social
determinants of health measures for user-specified locations in the
US, returning them in tidyverse- and sf-compatible data frames.
Author: Nik Krieger [aut, cre],
Jarrod Dalton [aut],
Cindy Wang [aut],
Adam Perzynski [aut],
National Institutes of Health/National Institute on Aging [fnd] . All of its contents
are solely the responsibility of the authors and do not necessarily
represent t [...truncated...]
Maintainer: Nik Krieger <nk@case.edu>
Diff between sociome versions 2.1.0 dated 2021-10-21 and 2.2.1 dated 2023-04-25
DESCRIPTION | 16 MD5 | 38 NAMESPACE | 31 NEWS.md | 7 R/calculate_adi.R | 1326 ++++++++++++------------- R/centers.R | 101 - R/data_documentation.R | 43 R/get_adi.R | 558 +++------- R/get_geoids.R | 244 +--- R/get_tidycensus.R |only R/ref_area.R |only R/synthetic_population.R |only R/validation.R | 924 ++++++----------- data/acs_age_sex_race_ethnicity_vars.rda |only data/acs_vars.rda |binary data/decennial_age_sex_race_ethnicity_vars.rda |only data/decennial_vars.rda |binary man/acs_age_sex_race_ethnicity_vars.Rd |only man/decennial_age_sex_race_ethnicity_vars.Rd |only man/get_adi.Rd | 544 +++++----- man/get_areas_near_coordinates.Rd | 20 man/lon_lat_from_area.Rd | 14 man/synthetic_population.Rd |only tests/testthat/test_tidycensus_related.R | 18 24 files changed, 1698 insertions(+), 2186 deletions(-)
Title: Calculate Crosstab and Topline Tables of Weighted Survey Data
Description: Calculate common types of tables for weighted survey data.
Options include topline and (2-way and 3-way) crosstab tables of
categorical or ordinal data as well as summary tables of weighted
numeric variables. Optionally, include the margin of error at
selected confidence intervals including the design effect. The
design effect is calculated as described by
Kish (1965) <doi:10.1002/bimj.19680100122> beginning
on page 257. Output takes the form of tibbles (simple data frames).
This package conveniently handles labelled data, such as that
commonly used by 'Stata' and 'SPSS.' Complex survey design is
not supported at this time.
Author: John D. Johnson [aut, cre]
Maintainer: John D. Johnson <john.d.johnson@marquette.edu>
Diff between pollster versions 0.1.4 dated 2022-10-26 and 0.1.5 dated 2023-04-25
DESCRIPTION | 8 +- MD5 | 12 +-- NEWS.md | 4 + R/Topline.R | 2 inst/doc/crosstab3way.html | 113 ++++++++++++++++++------------------ inst/doc/crosstabs.html | 115 ++++++++++++++++++------------------- inst/doc/toplines.html | 139 +++++++++++++++++++++++---------------------- 7 files changed, 200 insertions(+), 193 deletions(-)
Title: Multivariate Outlier Detection and Replacement
Description: Provides a random forest based implementation of the method
described in Chapter 7.1.2 (Regression model based anomaly detection)
of Chandola et al. (2009) <doi:10.1145/1541880.1541882>. It works as
follows: Each numeric variable is regressed onto all other variables
by a random forest. If the scaled absolute difference between observed
value and out-of-bag prediction of the corresponding random forest is
suspiciously large, then a value is considered an outlier. The package
offers different options to replace such outliers, e.g. by realistic
values found via predictive mean matching. Once the method is trained
on a reference data, it can be applied to new data.
Author: Michael Mayer [aut, cre]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between outForest versions 0.1.3 dated 2023-03-30 and 1.0.0 dated 2023-04-25
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 5 +++++ README.md | 2 +- build/vignette.rds |binary inst/doc/outForest.html | 4 ++-- 6 files changed, 16 insertions(+), 11 deletions(-)
Title: Manipulate Matrix Row and Column Labels with Ease
Description: Functions to assist manipulation of matrix
row and column labels for all types of matrix mathematics
where row and column labels are to be respected.
Author: Matthew Heun [aut, cre]
Maintainer: Matthew Heun <matthew.heun@me.com>
Diff between RCLabels versions 0.1.2 dated 2022-10-28 and 0.1.4 dated 2023-04-25
DESCRIPTION | 10 +-- LICENSE | 2 MD5 | 28 ++++----- NEWS.md | 23 +++++++ R/extractors.R | 8 ++ R/notation.R | 13 +++- R/utilities.R | 2 build/vignette.rds |binary inst/CITATION | 21 ++++--- inst/doc/RCLabels.html | 115 +++++++++++++++++++-------------------- man/get_piece.Rd | 8 ++ man/make_list.Rd | 2 man/row-col-notation.Rd | 9 ++- tests/testthat/test-extractors.R | 18 +++++- tests/testthat/test-notation.R | 17 +++++ 15 files changed, 178 insertions(+), 98 deletions(-)
Title: Help to Fit of a Parametric Distribution to Non-Censored or
Censored Data
Description: Extends the fitdistr() function (of the MASS package) with several functions
to help the fit of a parametric distribution to non-censored or censored data.
Censored data may contain left censored, right censored and interval censored values,
with several lower and upper bounds. In addition to maximum likelihood estimation (MLE),
the package provides moment matching (MME), quantile matching (QME), maximum goodness-of-fit
estimation (MGE) and maximum spacing estimation (MSE) methods (available only for
non-censored data). Weighted versions of MLE, MME, QME and MSE are available. See e.g.
Casella & Berger (2002), Statistical inference, Pacific Grove, for a general introduction
to parametric estimation.
Author: Marie-Laure Delignette-Muller [aut]
,
Christophe Dutang [aut] ,
Regis Pouillot [ctb],
Jean-Baptiste Denis [ctb],
Aurelie Siberchicot [aut, cre]
Maintainer: Aurelie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between fitdistrplus versions 1.1-8 dated 2022-03-10 and 1.1-11 dated 2023-04-25
fitdistrplus-1.1-11/fitdistrplus/DESCRIPTION | 20 fitdistrplus-1.1-11/fitdistrplus/MD5 | 126 fitdistrplus-1.1-11/fitdistrplus/NEWS.md |only fitdistrplus-1.1-11/fitdistrplus/R/CIcdfplot.R | 16 fitdistrplus-1.1-11/fitdistrplus/R/cdfcompcens.R | 10 fitdistrplus-1.1-11/fitdistrplus/R/denscomp.R | 2 fitdistrplus-1.1-11/fitdistrplus/R/descdist.R | 479 +-- fitdistrplus-1.1-11/fitdistrplus/R/gofstat.R | 768 ++--- fitdistrplus-1.1-11/fitdistrplus/R/mledist.R | 2 fitdistrplus-1.1-11/fitdistrplus/R/mmedist.R | 6 fitdistrplus-1.1-11/fitdistrplus/R/msedist.R | 2 fitdistrplus-1.1-11/fitdistrplus/R/prefit.R | 2 fitdistrplus-1.1-11/fitdistrplus/R/qmedist.R | 4 fitdistrplus-1.1-11/fitdistrplus/R/quantiles.R | 530 +-- fitdistrplus-1.1-11/fitdistrplus/R/util-checkparam.R | 14 fitdistrplus-1.1-11/fitdistrplus/R/util-isint.R | 6 fitdistrplus-1.1-11/fitdistrplus/R/util-manageparam.R | 2 fitdistrplus-1.1-11/fitdistrplus/R/util-npmle.R | 2 fitdistrplus-1.1-11/fitdistrplus/R/util-npsurv-intercens.R | 2 fitdistrplus-1.1-11/fitdistrplus/R/util-npsurv-main.R | 6 fitdistrplus-1.1-11/fitdistrplus/R/util-startarg.R | 4 fitdistrplus-1.1-11/fitdistrplus/R/util-wtdstat.R | 14 fitdistrplus-1.1-11/fitdistrplus/README.md | 34 fitdistrplus-1.1-11/fitdistrplus/build/partial.rdb |binary fitdistrplus-1.1-11/fitdistrplus/build/vignette.rds |binary fitdistrplus-1.1-11/fitdistrplus/inst/CITATION | 5 fitdistrplus-1.1-11/fitdistrplus/inst/doc/FAQ.R | 6 fitdistrplus-1.1-11/fitdistrplus/inst/doc/FAQ.Rmd | 16 fitdistrplus-1.1-11/fitdistrplus/inst/doc/FAQ.html | 1526 ++++++---- fitdistrplus-1.1-11/fitdistrplus/inst/doc/Optimalgo.R | 58 fitdistrplus-1.1-11/fitdistrplus/inst/doc/Optimalgo.Rmd | 71 fitdistrplus-1.1-11/fitdistrplus/inst/doc/Optimalgo.html | 550 ++- fitdistrplus-1.1-11/fitdistrplus/inst/doc/fitdistrplus_vignette.R |only fitdistrplus-1.1-11/fitdistrplus/inst/doc/fitdistrplus_vignette.Rmd |only fitdistrplus-1.1-11/fitdistrplus/inst/doc/fitdistrplus_vignette.html |only fitdistrplus-1.1-11/fitdistrplus/man/Surv2fitdistcens.Rd | 14 fitdistrplus-1.1-11/fitdistrplus/man/bootdistcens.Rd | 3 fitdistrplus-1.1-11/fitdistrplus/man/dataFAQ.Rd | 4 fitdistrplus-1.1-11/fitdistrplus/man/descdist.Rd | 10 fitdistrplus-1.1-11/fitdistrplus/man/detectbound.Rd | 10 fitdistrplus-1.1-11/fitdistrplus/man/fitdistcens.Rd | 7 fitdistrplus-1.1-11/fitdistrplus/man/fluazinam.Rd | 164 - fitdistrplus-1.1-11/fitdistrplus/man/fremale.Rd | 20 fitdistrplus-1.1-11/fitdistrplus/man/groundbeef.Rd | 86 fitdistrplus-1.1-11/fitdistrplus/man/mgedist.Rd | 5 fitdistrplus-1.1-11/fitdistrplus/man/mledist.Rd | 3 fitdistrplus-1.1-11/fitdistrplus/man/mmedist.Rd | 9 fitdistrplus-1.1-11/fitdistrplus/man/msedist.Rd | 2 fitdistrplus-1.1-11/fitdistrplus/man/plotdist.Rd | 5 fitdistrplus-1.1-11/fitdistrplus/man/plotdistcens.Rd | 5 fitdistrplus-1.1-11/fitdistrplus/man/qmedist.Rd | 4 fitdistrplus-1.1-11/fitdistrplus/man/quantile.Rd | 5 fitdistrplus-1.1-11/fitdistrplus/man/salinity.Rd | 166 - fitdistrplus-1.1-11/fitdistrplus/man/smokedfish.Rd | 109 fitdistrplus-1.1-11/fitdistrplus/man/toxocara.Rd | 94 fitdistrplus-1.1-11/fitdistrplus/tests/t-fitbench.R | 2 fitdistrplus-1.1-11/fitdistrplus/tests/t-init-actuar.R | 6 fitdistrplus-1.1-11/fitdistrplus/tests/t-mmedist.R | 4 fitdistrplus-1.1-11/fitdistrplus/tests/t-util-npmle.R | 33 fitdistrplus-1.1-11/fitdistrplus/tests/t-util-npsurv-mainfunction.R | 18 fitdistrplus-1.1-11/fitdistrplus/vignettes/FAQ.Rmd | 16 fitdistrplus-1.1-11/fitdistrplus/vignettes/Optimalgo.Rmd | 71 fitdistrplus-1.1-11/fitdistrplus/vignettes/fitdistrplus.bib |only fitdistrplus-1.1-11/fitdistrplus/vignettes/fitdistrplus_vignette.Rmd |only fitdistrplus-1.1-8/fitdistrplus/inst/NEWS |only fitdistrplus-1.1-8/fitdistrplus/inst/doc/paper2JSS.R |only fitdistrplus-1.1-8/fitdistrplus/inst/doc/paper2JSS.Rnw |only fitdistrplus-1.1-8/fitdistrplus/inst/doc/paper2JSS.pdf |only fitdistrplus-1.1-8/fitdistrplus/vignettes/jssfitdistrplus.bib |only fitdistrplus-1.1-8/fitdistrplus/vignettes/paper2JSS.Rnw |only 70 files changed, 2825 insertions(+), 2333 deletions(-)
Title: Methods for Estimating Optimal Dynamic Treatment Regimes
Description: Methods to estimate dynamic treatment regimes using Interactive
Q-Learning, Q-Learning, weighted learning, and value-search methods based on
Augmented Inverse Probability Weighted Estimators and Inverse Probability
Weighted Estimators. Dynamic Treatment Regimes: Statistical Methods for
Precision Medicine, Tsiatis, A. A., Davidian, M. D., Holloway, S. T., and Laber, E. B.,
Chapman & Hall/CRC Press, 2020, ISBN:978-1-4987-6977-8.
Author: S. T. Holloway, E. B. Laber, K. A. Linn, B. Zhang, M. Davidian, and A. A. Tsiatis
Maintainer: Shannon T. Holloway <shannon.t.holloway@gmail.com>
Diff between DynTxRegime versions 4.11 dated 2022-09-29 and 4.12 dated 2023-04-25
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/E_class_IQLearnFS_VHet.R | 7 ++++++- 3 files changed, 12 insertions(+), 7 deletions(-)
Title: Simple and Robust Translation System
Description: Allows translating with formatted string literals, grouped entries, and configurable system of plurals. Have a separate file for each locale and use inheritance to handle dialect differences.
Author: Laura Bakala [cre, aut] ,
Edward Gillian [ctb] ,
Transition Technologies Science [cph, fnd]
Maintainer: Laura Bakala <Laura.Bakala@ttsi.com.pl>
Diff between translated versions 0.1.0 dated 2023-01-31 and 0.1.1 dated 2023-04-25
DESCRIPTION | 29 +++++++++++------ MD5 | 23 ++++++++------ NAMESPACE | 27 ++++++++-------- NEWS.md | 11 ++++-- R/trans_available.R |only R/trans_path.R | 55 +++++++++++++++++----------------- R/trans_reload.R | 34 ++++++++++----------- README.md | 9 ++++- inst/examples/translation_en_US.json | 42 ++++++++++++------------- inst/examples/translation_pl.json | 42 ++++++++++++------------- man/figures/README-deepdep-1.png |binary man/trans_available.Rd |only man/trans_reload.Rd | 40 ++++++++++++------------ tests/testthat/test-trans_available.R |only 14 files changed, 169 insertions(+), 143 deletions(-)
Title: Access EPA 'ATTAINS' Data
Description: An R interface to United States Environmental Protection Agency (EPA)
Assessment, Total Maximum Daily Load (TMDL) Tracking and Implementation System
('ATTAINS') data. 'ATTAINS' is the EPA database used to track information
provided by states about water quality assessments conducted under federal
Clean Water Act requirements. ATTAINS information and API information is available at <https://www.epa.gov/waterdata/attains>.
Author: Michael Schramm [aut, cre, cph]
Maintainer: Michael Schramm <mpschramm@gmail.com>
Diff between rATTAINS versions 0.1.4 dated 2023-01-10 and 1.0.0 dated 2023-04-25
rATTAINS-0.1.4/rATTAINS/R/utils-pipe.R |only rATTAINS-0.1.4/rATTAINS/man/pipe.Rd |only rATTAINS-0.1.4/rATTAINS/tests/files |only rATTAINS-1.0.0/rATTAINS/DESCRIPTION | 14 rATTAINS-1.0.0/rATTAINS/MD5 | 90 + rATTAINS-1.0.0/rATTAINS/NAMESPACE | 20 rATTAINS-1.0.0/rATTAINS/NEWS.md | 27 rATTAINS-1.0.0/rATTAINS/R/actions.R | 335 +++++- rATTAINS-1.0.0/rATTAINS/R/assessment_units.R | 156 ++- rATTAINS-1.0.0/rATTAINS/R/assessments.R | 488 ++++++---- rATTAINS-1.0.0/rATTAINS/R/domain_values.R | 42 rATTAINS-1.0.0/rATTAINS/R/huc12_summary.R | 314 ++++-- rATTAINS-1.0.0/rATTAINS/R/internal.R | 56 - rATTAINS-1.0.0/rATTAINS/R/plans.R | 405 ++++---- rATTAINS-1.0.0/rATTAINS/R/rATTAINS-package.R |only rATTAINS-1.0.0/rATTAINS/R/state_summary.R | 142 +- rATTAINS-1.0.0/rATTAINS/R/survey.R | 166 +-- rATTAINS-1.0.0/rATTAINS/README.md | 359 +++---- rATTAINS-1.0.0/rATTAINS/inst/CITATION | 12 rATTAINS-1.0.0/rATTAINS/inst/doc/Introduction.R | 5 rATTAINS-1.0.0/rATTAINS/inst/doc/Introduction.Rmd | 18 rATTAINS-1.0.0/rATTAINS/inst/doc/Introduction.html | 370 +++---- rATTAINS-1.0.0/rATTAINS/man/actions.Rd | 16 rATTAINS-1.0.0/rATTAINS/man/assessment_units.Rd | 9 rATTAINS-1.0.0/rATTAINS/man/assessments.Rd | 117 +- rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-archived.svg |only rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-defunct.svg |only rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-deprecated.svg |only rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-experimental.svg |only rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-maturing.svg |only rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-questioning.svg |only rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-stable.svg |only rATTAINS-1.0.0/rATTAINS/man/figures/lifecycle-superseded.svg |only rATTAINS-1.0.0/rATTAINS/man/huc12_summary.Rd | 22 rATTAINS-1.0.0/rATTAINS/man/plans.Rd | 17 rATTAINS-1.0.0/rATTAINS/man/rATTAINS-package.Rd |only rATTAINS-1.0.0/rATTAINS/man/state_summary.Rd | 12 rATTAINS-1.0.0/rATTAINS/man/surveys.Rd | 12 rATTAINS-1.0.0/rATTAINS/tests/fixtures/actions_unnest_works.yml |only rATTAINS-1.0.0/rATTAINS/tests/fixtures/assessment_units_unnest_works.yml |only rATTAINS-1.0.0/rATTAINS/tests/fixtures/assessments_unnest_works.yml |only rATTAINS-1.0.0/rATTAINS/tests/fixtures/huc12_unnest_works.yml |only rATTAINS-1.0.0/rATTAINS/tests/fixtures/huc12_works.yml | 67 - rATTAINS-1.0.0/rATTAINS/tests/fixtures/plans_unnest_works.yml |only rATTAINS-1.0.0/rATTAINS/tests/fixtures/state_summary.yml | 4 rATTAINS-1.0.0/rATTAINS/tests/fixtures/state_summary_unnest_works.yml |only rATTAINS-1.0.0/rATTAINS/tests/fixtures/survey_unnest_works.yml |only rATTAINS-1.0.0/rATTAINS/tests/testthat/setup-rATTAINS.R | 3 rATTAINS-1.0.0/rATTAINS/tests/testthat/test-actions.R | 5 rATTAINS-1.0.0/rATTAINS/tests/testthat/test-assessment_units.R | 5 rATTAINS-1.0.0/rATTAINS/tests/testthat/test-assessments.R | 9 rATTAINS-1.0.0/rATTAINS/tests/testthat/test-huc12_summary.R | 13 rATTAINS-1.0.0/rATTAINS/tests/testthat/test-plans.R | 10 rATTAINS-1.0.0/rATTAINS/tests/testthat/test-state_summary.R | 6 rATTAINS-1.0.0/rATTAINS/tests/testthat/test-survey.R | 8 rATTAINS-1.0.0/rATTAINS/vignettes/Introduction.Rmd | 18 56 files changed, 2013 insertions(+), 1359 deletions(-)
Title: Data Validation and Organization of Metadata for Local and
Remote Tables
Description: Validate data in data frames, 'tibble' objects, 'Spark'
'DataFrames', and database tables. Validation pipelines can be made using
easily-readable, consecutive validation steps. Upon execution of the
validation plan, several reporting options are available. User-defined
thresholds for failure rates allow for the determination of appropriate
reporting actions. Many other workflows are available including an
information management workflow, where the aim is to record, collect, and
generate useful information on data tables.
Author: Richard Iannone [aut, cre] ,
Mauricio Vargas [aut]
Maintainer: Richard Iannone <riannone@me.com>
Diff between pointblank versions 0.11.3 dated 2023-02-09 and 0.11.4 dated 2023-04-25
DESCRIPTION | 8 +- MD5 | 18 +++--- NEWS.md | 4 + R/utils.R | 132 +++++++++++++++++++++++++------------------- man/col_vals_decreasing.Rd | 30 +++++----- man/col_vals_increasing.Rd | 30 +++++----- man/col_vals_within_spec.Rd | 21 +++---- man/draft_validation.Rd | 30 +++++----- man/tt_time_shift.Rd | 30 +++++----- man/tt_time_slice.Rd | 30 +++++----- 10 files changed, 179 insertions(+), 154 deletions(-)
Title: Optimal Channel Networks
Description: Generate and analyze Optimal Channel Networks (OCNs):
oriented spanning trees reproducing all scaling features characteristic
of real, natural river networks. As such, they can be used in a variety
of numerical experiments in the fields of hydrology, ecology and
epidemiology. See Carraro et al. (2020) <doi:10.1002/ece3.6479>
for a presentation of the package; Rinaldo et al. (2014)
<doi:10.1073/pnas.1322700111> for a theoretical overview on the OCN
concept; Furrer and Sain (2010) <doi:10.18637/jss.v036.i10> for the
construct used.
Author: Luca Carraro [aut, cre],
Florian Altermatt [ctb],
Emanuel A. Fronhofer [ctb],
Reinhard Furrer [ctb],
Isabelle Gounand [ctb],
Andrea Rinaldo [ctb],
Enrico Bertuzzo [aut]
Maintainer: Luca Carraro <luca.carraro@hotmail.it>
Diff between OCNet versions 1.0.0 dated 2023-03-27 and 1.0.1 dated 2023-04-25
DESCRIPTION | 10 - MD5 | 23 +-- NAMESPACE | 1 NEWS.md | 12 + R/RcppExports.R |only R/aggregate_OCN.R | 333 +++++++++++----------------------------------- R/create_OCN.R | 4 R/landscape_OCN.R | 4 R/paths_OCN.R | 307 ++++++++++++++++++++++-------------------- inst/doc/OCNet.html | 12 - src/NeighbouringNodes.cpp |only src/RcppExports.cpp |only src/WSC.cpp |only src/init.c | 14 + src/paths.cpp |only 15 files changed, 310 insertions(+), 410 deletions(-)
Title: Reading Annual and Quarterly Financial Reports from B3
Description: Reads annual and quarterly financial reports from companies traded at B3, the Brazilian exchange
<https://www.b3.com.br/>.
All data is downloaded and imported from CVM's public ftp site <https://dados.cvm.gov.br/dados/CIA_ABERTA/>.
Author: Marcelo Perlin [aut, cre],
Guilherme Kirch [aut]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between GetDFPData2 versions 0.6.2 dated 2022-06-09 and 0.6.3 dated 2023-04-25
DESCRIPTION | 10 - MD5 | 26 ++-- NEWS.md | 5 R/fct_download_file.R | 8 + R/fct_get_dfp_data.R | 2 R/fct_get_dfp_docs.R | 2 R/fct_get_info_companies.R | 6 - R/fct_get_itr_data.R | 2 README.md | 4 build/vignette.rds |binary inst/doc/GetDFPData2-vignette-introduction.Rmd | 3 inst/doc/GetDFPData2-vignette-introduction.html | 133 ++++++++++++------------ man/get_info_companies.Rd | 2 vignettes/GetDFPData2-vignette-introduction.Rmd | 3 14 files changed, 111 insertions(+), 95 deletions(-)
Title: Mouse Map Converter
Description: Convert mouse genome positions between the build 39 physical map and the genetic map of Cox et al. (2009) <doi:10.1534/genetics.109.105486>.
Author: Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between mmconvert versions 0.8 dated 2023-03-29 and 0.10 dated 2023-04-25
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 6 ++++++ R/mmconvert.R | 19 +++++++++++++++++++ README.md | 15 ++++++++++----- build/partial.rdb |binary data/MUGAmaps.RData |binary data/coxmap.RData |binary data/grcm39_chrlen.RData |binary 9 files changed, 47 insertions(+), 17 deletions(-)
Title: Create Highly-Customized 'LaTeX' Tables
Description: Generate 'LaTeX' tables directly from R. It builds 'LaTeX' tables in blocks in the spirit of 'ggplot2' using the '+' and '/' operators for concatenation in the vertical and horizontal dimensions, respectively. It exports tables in the 'LaTeX' tabular environment using '.tex' code. It can compile '.tex' code to 'PDF' automatically.
Author: Thibaut Lamadon [aut, cph],
Bradley Setzler [aut, cre, cph]
Maintainer: Bradley Setzler <bradley.setzler@gmail.com>
Diff between textab versions 1.0 dated 2023-03-27 and 1.0.1 dated 2023-04-25
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/concatenation.R | 4 ++-- R/construct_row.R | 6 +++--- R/midrule.R | 2 +- inst/doc/Numerics.html | 20 ++++++++++---------- inst/doc/textab.html | 36 ++++++++++++++++++------------------ man/TexMidrule.Rd | 2 +- man/TexRow.Rd | 6 +++--- man/plus-.tt_.Rd | 2 +- man/slash-.tt_.Rd | 2 +- 11 files changed, 54 insertions(+), 54 deletions(-)
Title: Nonparametric Tests in Spatial Statistics
Description: Nonparametric test of independence between a pair of spatial objects
(random fields, point processes) based on random shifts with torus or variance correction. See
Mrkvička et al. (2021) <doi:10.1016/j.spasta.2020.100430>,
Dvořák et al. (2022) <doi:10.1111/insr.12503>,
Dvořák and Mrkvička (2022) <arxiv:2210.05424>.
Author: Jiri Dvorak [aut, cre] ,
Tomas Mrkvicka [ctb]
Maintainer: Jiri Dvorak <dvorak@karlin.mff.cuni.cz>
Diff between NTSS versions 0.1.0 dated 2023-02-28 and 0.1.1 dated 2023-04-25
DESCRIPTION | 8 +- MD5 | 20 +++--- NAMESPACE | 1 R/CC.test.R | 5 - R/PC.test.R | 7 +- R/PMC.test.R | 5 - R/PP.test.R | 171 +++++++++++++++++++++++++++++++++++++++++--------------- man/CC.test.Rd | 5 - man/PC.test.Rd | 7 +- man/PMC.test.Rd | 5 - man/PP.test.Rd | 47 ++++++++++++--- 11 files changed, 203 insertions(+), 78 deletions(-)
Title: Analysis of Oceanographic Data
Description: Supports the analysis of Oceanographic data, including 'ADCP'
measurements, measurements made with 'argo' floats, 'CTD' measurements,
sectional data, sea-level time series, coastline and topographic data, etc.
Provides specialized functions for calculating seawater properties such as
potential temperature in either the 'UNESCO' or 'TEOS-10' equation of state.
Produces graphical displays that conform to the conventions of the
Oceanographic literature. This package is discussed extensively by
Kelley (2018) "Oceanographic Analysis with R" <doi:10.1007/978-1-4939-8844-0>.
Author: Dan Kelley [aut, cre] ,
Clark Richards [aut] ,
Chantelle Layton [ctb]
coauthor),
British Geological Survey [ctb, cph]
Maintainer: Dan Kelley <Dan.Kelley@Dal.Ca>
Diff between oce versions 1.7-10 dated 2022-08-18 and 1.8-0 dated 2023-04-25
oce-1.7-10/oce/R/ctd.odf.R |only oce-1.7-10/oce/inst/extdata/ctd.cnv |only oce-1.7-10/oce/inst/extdata/ctd_aml.csv |only oce-1.7-10/oce/inst/extdata/d200321-001.ctd |only oce-1.7-10/oce/inst/extdata/d201211_0011.cnv |only oce-1.7-10/oce/man/ctd.cnv.Rd |only oce-1.7-10/oce/man/ctd_aml.csv.Rd |only oce-1.7-10/oce/man/d200321-001.ctd.Rd |only oce-1.7-10/oce/man/d201211_0011.cnv.Rd |only oce-1.7-10/oce/man/plotAD2CP.Rd |only oce-1.7-10/oce/tests/testthat/t_equilib.dat |only oce-1.7-10/oce/tests/testthat/test_ad2cp_1.R |only oce-1.8-0/oce/DESCRIPTION | 14 oce-1.8-0/oce/MD5 | 752 +- oce-1.8-0/oce/NAMESPACE | 3 oce-1.8-0/oce/NEWS.md | 32 oce-1.8-0/oce/R/AllClass.R | 1739 +++-- oce-1.8-0/oce/R/RcppExports.R | 4 oce-1.8-0/oce/R/accessors.R | 83 oce-1.8-0/oce/R/ad.R | 30 oce-1.8-0/oce/R/adp.R | 4365 +++++++-------- oce-1.8-0/oce/R/adp.nortek.R | 353 - oce-1.8-0/oce/R/adp.nortek.ad2cp.R | 1802 +++--- oce-1.8-0/oce/R/adp.rdi.R | 1601 ++--- oce-1.8-0/oce/R/adp.sontek.R | 460 - oce-1.8-0/oce/R/adv.R | 1607 ++--- oce-1.8-0/oce/R/adv.nortek.R | 403 - oce-1.8-0/oce/R/adv.sontek.R | 522 - oce-1.8-0/oce/R/air.R | 6 oce-1.8-0/oce/R/amsr.R | 674 +- oce-1.8-0/oce/R/argo.R | 1759 +++--- oce-1.8-0/oce/R/argo.copernicus.R | 46 oce-1.8-0/oce/R/astronomy.R | 23 oce-1.8-0/oce/R/bremen.R | 119 oce-1.8-0/oce/R/cm.R | 715 +- oce-1.8-0/oce/R/coastline.R | 1248 ++-- oce-1.8-0/oce/R/colors.R | 440 - oce-1.8-0/oce/R/ctd.R | 2778 +++++---- oce-1.8-0/oce/R/ctd.aml.R | 27 oce-1.8-0/oce/R/ctd.itp.R | 37 oce-1.8-0/oce/R/ctd.odv.R | 260 oce-1.8-0/oce/R/ctd.sbe.R | 626 -- oce-1.8-0/oce/R/ctd.ssda.R | 22 oce-1.8-0/oce/R/ctd.woce.R | 323 - oce-1.8-0/oce/R/echosounder.R | 1105 +-- oce-1.8-0/oce/R/extdata.R | 17 oce-1.8-0/oce/R/g1sst.R | 32 oce-1.8-0/oce/R/geod.R | 60 oce-1.8-0/oce/R/gps.R | 520 - oce-1.8-0/oce/R/imagep.R | 838 +- oce-1.8-0/oce/R/index.R | 29 oce-1.8-0/oce/R/ladp.R | 155 oce-1.8-0/oce/R/landsat.R | 1161 +-- oce-1.8-0/oce/R/lisst.R | 181 oce-1.8-0/oce/R/lobo.R | 282 oce-1.8-0/oce/R/map.R | 1213 +--- oce-1.8-0/oce/R/met.R | 558 - oce-1.8-0/oce/R/misc.R | 1525 ++--- oce-1.8-0/oce/R/moon.R | 372 - oce-1.8-0/oce/R/oce.R | 802 +- oce-1.8-0/oce/R/odf.R | 380 - oce-1.8-0/oce/R/rsk.R | 1211 ++-- oce-1.8-0/oce/R/run.R | 36 oce-1.8-0/oce/R/satellite.R | 86 oce-1.8-0/oce/R/sealevel.R | 586 -- oce-1.8-0/oce/R/section.R | 2018 +++--- oce-1.8-0/oce/R/spectral.R | 93 oce-1.8-0/oce/R/sun.R | 191 oce-1.8-0/oce/R/sw.R | 499 - oce-1.8-0/oce/R/tides.R | 1012 +-- oce-1.8-0/oce/R/topo.R | 862 +- oce-1.8-0/oce/R/units.R | 2 oce-1.8-0/oce/R/windrose.R | 285 oce-1.8-0/oce/R/xbt.R | 109 oce-1.8-0/oce/R/zzz.R | 25 oce-1.8-0/oce/build/partial.rdb |binary oce-1.8-0/oce/build/vignette.rds |binary oce-1.8-0/oce/data/argo.rda |binary oce-1.8-0/oce/data/cm.rda |binary oce-1.8-0/oce/data/rsk.rda |binary oce-1.8-0/oce/demo/00Index | 2 oce-1.8-0/oce/demo/TS.R | 8 oce-1.8-0/oce/demo/coastline.R | 4 oce-1.8-0/oce/demo/ctd.R | 4 oce-1.8-0/oce/demo/eos.R | 2 oce-1.8-0/oce/demo/geoddist.R | 4 oce-1.8-0/oce/demo/lobo.R | 2 oce-1.8-0/oce/demo/tide.R | 6 oce-1.8-0/oce/inst/WORDLIST | 15 oce-1.8-0/oce/inst/doc/A_oce.R | 18 oce-1.8-0/oce/inst/doc/A_oce.Rmd | 20 oce-1.8-0/oce/inst/doc/A_oce.html | 153 oce-1.8-0/oce/inst/doc/B_ctd.R | 14 oce-1.8-0/oce/inst/doc/B_ctd.Rmd | 16 oce-1.8-0/oce/inst/doc/B_ctd.html | 146 oce-1.8-0/oce/inst/doc/C_adp.R | 38 oce-1.8-0/oce/inst/doc/C_adp.Rmd | 54 oce-1.8-0/oce/inst/doc/C_adp.html | 188 oce-1.8-0/oce/inst/doc/D_map_projections.R | 34 oce-1.8-0/oce/inst/doc/D_map_projections.Rmd | 50 oce-1.8-0/oce/inst/doc/D_map_projections.html | 209 oce-1.8-0/oce/inst/doc/E_flags.R | 24 oce-1.8-0/oce/inst/doc/E_flags.Rmd | 36 oce-1.8-0/oce/inst/doc/E_flags.html | 178 oce-1.8-0/oce/inst/doc/F_subclassing.R | 23 oce-1.8-0/oce/inst/doc/F_subclassing.Rmd | 27 oce-1.8-0/oce/inst/doc/F_subclassing.html | 221 oce-1.8-0/oce/inst/extdata/ctd.cnv.gz |only oce-1.8-0/oce/inst/extdata/ctd_aml.csv.gz |only oce-1.8-0/oce/inst/extdata/d200321-001.ctd.gz |only oce-1.8-0/oce/inst/extdata/d201211_0011.cnv.gz |only oce-1.8-0/oce/man/CTD_BCD2014666_008_1_DN.ODF.gz.Rd | 17 oce-1.8-0/oce/man/ad2cpCodeToName.Rd | 7 oce-1.8-0/oce/man/ad2cpHeaderValue.Rd | 1 oce-1.8-0/oce/man/adp-class.Rd | 20 oce-1.8-0/oce/man/adp.Rd | 1 oce-1.8-0/oce/man/adpAd2cpFileTrim.Rd | 5 oce-1.8-0/oce/man/adpConvertRawToNumeric.Rd | 1 oce-1.8-0/oce/man/adpEnsembleAverage.Rd | 5 oce-1.8-0/oce/man/adpFlagPastBoundary.Rd | 28 oce-1.8-0/oce/man/adpRdiFileTrim.Rd | 2 oce-1.8-0/oce/man/adp_rdi.000.Rd | 9 oce-1.8-0/oce/man/adv-class.Rd | 2 oce-1.8-0/oce/man/adv.Rd | 2 oce-1.8-0/oce/man/advSontekAdrFileTrim.Rd |only oce-1.8-0/oce/man/angleRemap.Rd | 4 oce-1.8-0/oce/man/applyMagneticDeclination-adp-method.Rd |only oce-1.8-0/oce/man/applyMagneticDeclination-adv-method.Rd |only oce-1.8-0/oce/man/applyMagneticDeclination-cm-method.Rd |only oce-1.8-0/oce/man/applyMagneticDeclination-oce-method.Rd |only oce-1.8-0/oce/man/applyMagneticDeclination.Rd | 59 oce-1.8-0/oce/man/approx3d.Rd | 10 oce-1.8-0/oce/man/argoGrid.Rd | 2 oce-1.8-0/oce/man/argoNames2oceNames.Rd | 1 oce-1.8-0/oce/man/as.adp.Rd | 1 oce-1.8-0/oce/man/as.cm.Rd | 1 oce-1.8-0/oce/man/as.ctd.Rd | 34 oce-1.8-0/oce/man/as.echosounder.Rd | 27 oce-1.8-0/oce/man/as.rsk.Rd | 1 oce-1.8-0/oce/man/as.section.Rd | 6 oce-1.8-0/oce/man/as.tidem.Rd | 2 oce-1.8-0/oce/man/beamName.Rd | 3 oce-1.8-0/oce/man/beamToXyz.Rd | 3 oce-1.8-0/oce/man/beamToXyzAdp.Rd | 6 oce-1.8-0/oce/man/beamToXyzAdpAD2CP.Rd | 1 oce-1.8-0/oce/man/beamToXyzAdv.Rd | 1 oce-1.8-0/oce/man/beamUnspreadAdp.Rd | 5 oce-1.8-0/oce/man/binApply1D.Rd | 6 oce-1.8-0/oce/man/binApply2D.Rd | 8 oce-1.8-0/oce/man/binAverage.Rd | 12 oce-1.8-0/oce/man/binMean1D.Rd | 2 oce-1.8-0/oce/man/binmapAdp.Rd | 1 oce-1.8-0/oce/man/byteToBinary.Rd | 2 oce-1.8-0/oce/man/cm-class.Rd | 1 oce-1.8-0/oce/man/cm.Rd | 1 oce-1.8-0/oce/man/cnvName2oceName.Rd | 287 oce-1.8-0/oce/man/colormap.Rd | 24 oce-1.8-0/oce/man/composite-amsr-method.Rd | 1 oce-1.8-0/oce/man/composite-list-method.Rd | 1 oce-1.8-0/oce/man/composite.Rd | 1 oce-1.8-0/oce/man/ctd-class.Rd | 9 oce-1.8-0/oce/man/ctd.Rd | 13 oce-1.8-0/oce/man/ctd.cnv.gz.Rd |only oce-1.8-0/oce/man/ctdDecimate.Rd | 24 oce-1.8-0/oce/man/ctdFindProfiles.Rd | 25 oce-1.8-0/oce/man/ctdFindProfilesRBR.Rd |only oce-1.8-0/oce/man/ctdRaw.Rd | 9 oce-1.8-0/oce/man/ctdRepair.Rd | 15 oce-1.8-0/oce/man/ctdTrim.Rd | 42 oce-1.8-0/oce/man/ctd_aml.csv.gz.Rd |only oce-1.8-0/oce/man/curl.Rd | 6 oce-1.8-0/oce/man/d200321-001.ctd.gz.Rd |only oce-1.8-0/oce/man/d201211_0011.cnv.gz.Rd |only oce-1.8-0/oce/man/decimate.Rd | 2 oce-1.8-0/oce/man/despike.Rd | 8 oce-1.8-0/oce/man/detrend.Rd | 4 oce-1.8-0/oce/man/download.amsr.Rd | 2 oce-1.8-0/oce/man/download.topo.Rd | 19 oce-1.8-0/oce/man/drawDirectionField.Rd | 4 oce-1.8-0/oce/man/drawIsopycnals.Rd | 47 oce-1.8-0/oce/man/drawPalette.Rd | 10 oce-1.8-0/oce/man/enuToOther.Rd | 3 oce-1.8-0/oce/man/enuToOtherAdp.Rd | 1 oce-1.8-0/oce/man/enuToOtherAdv.Rd | 2 oce-1.8-0/oce/man/fillGap.Rd | 4 oce-1.8-0/oce/man/geodDist.Rd | 2 oce-1.8-0/oce/man/geodGc.Rd | 2 oce-1.8-0/oce/man/grad.Rd | 4 oce-1.8-0/oce/man/handleFlags-adp-method.Rd | 3 oce-1.8-0/oce/man/handleFlags-argo-method.Rd | 2 oce-1.8-0/oce/man/handleFlags-ctd-method.Rd | 15 oce-1.8-0/oce/man/handleFlags-oce-method.Rd | 2 oce-1.8-0/oce/man/handleFlags-section-method.Rd | 2 oce-1.8-0/oce/man/handleFlags-vector-method.Rd | 2 oce-1.8-0/oce/man/handleFlags.Rd | 2 oce-1.8-0/oce/man/imagep.Rd | 10 oce-1.8-0/oce/man/initialize-ctd-method.Rd | 9 oce-1.8-0/oce/man/initializeFlagScheme-ctd-method.Rd | 9 oce-1.8-0/oce/man/initializeFlagScheme-section-method.Rd | 2 oce-1.8-0/oce/man/is.ad2cp.Rd | 1 oce-1.8-0/oce/man/julianDay.Rd | 2 oce-1.8-0/oce/man/lonlat2map.Rd | 2 oce-1.8-0/oce/man/lonlat2utm.Rd | 2 oce-1.8-0/oce/man/lookWithin.Rd | 12 oce-1.8-0/oce/man/lowpass.Rd | 2 oce-1.8-0/oce/man/magneticField.Rd | 26 oce-1.8-0/oce/man/makeFilter.Rd | 14 oce-1.8-0/oce/man/map2lonlat.Rd | 2 oce-1.8-0/oce/man/mapAxis.Rd | 4 oce-1.8-0/oce/man/mapDirectionField.Rd | 2 oce-1.8-0/oce/man/mapImage.Rd | 13 oce-1.8-0/oce/man/mapPlot.Rd | 27 oce-1.8-0/oce/man/mapPolygon.Rd | 2 oce-1.8-0/oce/man/mapScalebar.Rd | 2 oce-1.8-0/oce/man/mapText.Rd | 6 oce-1.8-0/oce/man/matrixShiftLongitude.Rd | 3 oce-1.8-0/oce/man/moonAngle.Rd | 2 oce-1.8-0/oce/man/numberAsPOSIXct.Rd | 92 oce-1.8-0/oce/man/oce-deprecated.Rd | 4 oce-1.8-0/oce/man/oceColors9B.Rd | 4 oce-1.8-0/oce/man/oceConvolve.Rd | 4 oce-1.8-0/oce/man/oceDebug.Rd | 6 oce-1.8-0/oce/man/oceEdit.Rd | 12 oce-1.8-0/oce/man/oceFileTrim.Rd | 3 oce-1.8-0/oce/man/oceFilter.Rd | 2 oce-1.8-0/oce/man/oceNames2whpNames.Rd | 9 oce-1.8-0/oce/man/oceProject.Rd | 7 oce-1.8-0/oce/man/oceUnits2whpUnits.Rd | 9 oce-1.8-0/oce/man/plot-adp-method.Rd | 27 oce-1.8-0/oce/man/plot-adv-method.Rd | 2 oce-1.8-0/oce/man/plot-amsr-method.Rd | 7 oce-1.8-0/oce/man/plot-cm-method.Rd | 1 oce-1.8-0/oce/man/plot-coastline-method.Rd | 2 oce-1.8-0/oce/man/plot-ctd-method.Rd | 25 oce-1.8-0/oce/man/plot-echosounder-method.Rd | 11 oce-1.8-0/oce/man/plot-met-method.Rd | 8 oce-1.8-0/oce/man/plot-rsk-method.Rd | 11 oce-1.8-0/oce/man/plot-sealevel-method.Rd | 2 oce-1.8-0/oce/man/plot-section-method.Rd | 18 oce-1.8-0/oce/man/plot-tidem-method.Rd | 4 oce-1.8-0/oce/man/plotProfile.Rd | 25 oce-1.8-0/oce/man/plotScan.Rd | 38 oce-1.8-0/oce/man/plotTS.Rd | 60 oce-1.8-0/oce/man/predict.tidem.Rd | 2 oce-1.8-0/oce/man/pwelch.Rd | 2 oce-1.8-0/oce/man/read.adp.Rd | 1 oce-1.8-0/oce/man/read.adp.ad2cp.Rd | 221 oce-1.8-0/oce/man/read.adp.nortek.Rd | 1 oce-1.8-0/oce/man/read.adp.rdi.Rd | 9 oce-1.8-0/oce/man/read.adp.sontek.Rd | 1 oce-1.8-0/oce/man/read.adp.sontek.serial.Rd | 1 oce-1.8-0/oce/man/read.adv.Rd | 2 oce-1.8-0/oce/man/read.adv.nortek.Rd | 2 oce-1.8-0/oce/man/read.adv.sontek.adr.Rd | 12 oce-1.8-0/oce/man/read.adv.sontek.serial.Rd | 2 oce-1.8-0/oce/man/read.adv.sontek.text.Rd | 2 oce-1.8-0/oce/man/read.aquadopp.Rd | 1 oce-1.8-0/oce/man/read.aquadoppHR.Rd | 1 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oce-1.8-0/oce/man/setFlags-ctd-method.Rd | 9 oce-1.8-0/oce/man/sub-sub-adp-method.Rd | 13 oce-1.8-0/oce/man/sub-sub-adv-method.Rd | 2 oce-1.8-0/oce/man/sub-sub-cm-method.Rd | 1 oce-1.8-0/oce/man/sub-sub-ctd-method.Rd | 9 oce-1.8-0/oce/man/sub-sub-rsk-method.Rd | 1 oce-1.8-0/oce/man/sub-subset-adp-method.Rd | 1 oce-1.8-0/oce/man/sub-subset-adv-method.Rd | 2 oce-1.8-0/oce/man/sub-subset-cm-method.Rd | 1 oce-1.8-0/oce/man/sub-subset-ctd-method.Rd | 9 oce-1.8-0/oce/man/sub-subset-rsk-method.Rd | 1 oce-1.8-0/oce/man/subset-adp-method.Rd | 10 oce-1.8-0/oce/man/subset-adv-method.Rd | 2 oce-1.8-0/oce/man/subset-argo-method.Rd | 2 oce-1.8-0/oce/man/subset-cm-method.Rd | 1 oce-1.8-0/oce/man/subset-coastline-method.Rd | 8 oce-1.8-0/oce/man/subset-ctd-method.Rd | 13 oce-1.8-0/oce/man/subset-rsk-method.Rd | 1 oce-1.8-0/oce/man/subset-topo-method.Rd | 2 oce-1.8-0/oce/man/subtractBottomVelocity.Rd | 1 oce-1.8-0/oce/man/summary-adp-method.Rd | 1 oce-1.8-0/oce/man/summary-adv-method.Rd | 2 oce-1.8-0/oce/man/summary-cm-method.Rd | 1 oce-1.8-0/oce/man/summary-ctd-method.Rd | 9 oce-1.8-0/oce/man/summary-rsk-method.Rd | 1 oce-1.8-0/oce/man/summary-section-method.Rd | 2 oce-1.8-0/oce/man/summary-tidem-method.Rd | 2 oce-1.8-0/oce/man/sunAngle.Rd | 10 oce-1.8-0/oce/man/sunDeclinationRightAscension.Rd | 4 oce-1.8-0/oce/man/swSCTp.Rd | 11 oce-1.8-0/oce/man/swSoundAbsorption.Rd | 6 oce-1.8-0/oce/man/swSpice.Rd | 4 oce-1.8-0/oce/man/swTheta.Rd | 18 oce-1.8-0/oce/man/tidem.Rd | 51 oce-1.8-0/oce/man/tidemVuf.Rd | 2 oce-1.8-0/oce/man/toEnu.Rd | 3 oce-1.8-0/oce/man/toEnuAdp.Rd | 1 oce-1.8-0/oce/man/toEnuAdv.Rd | 2 oce-1.8-0/oce/man/utm2lonlat.Rd | 2 oce-1.8-0/oce/man/velocityStatistics.Rd | 3 oce-1.8-0/oce/man/webtide.Rd | 6 oce-1.8-0/oce/man/woceNames2oceNames.Rd | 9 oce-1.8-0/oce/man/woceUnit2oceUnit.Rd | 9 oce-1.8-0/oce/man/write.ctd.Rd | 9 oce-1.8-0/oce/man/xbt.edf.Rd | 8 oce-1.8-0/oce/man/xyzToEnu.Rd | 3 oce-1.8-0/oce/man/xyzToEnuAdp.Rd | 13 oce-1.8-0/oce/man/xyzToEnuAdpAD2CP.Rd | 1 oce-1.8-0/oce/man/xyzToEnuAdv.Rd | 11 oce-1.8-0/oce/po/R-fr.po | 5 oce-1.8-0/oce/src/RcppExports.cpp | 7 oce-1.8-0/oce/src/bin.cpp | 4 oce-1.8-0/oce/src/bitwise.c | 6 oce-1.8-0/oce/src/ldc_ad2cp_in_file.cpp | 52 oce-1.8-0/oce/src/ldc_rdi_in_file.cpp | 4 oce-1.8-0/oce/src/registerDynamicSymbol.c | 5 oce-1.8-0/oce/src/sw.c | 18 oce-1.8-0/oce/tests/testthat/test_accessors.R | 7 oce-1.8-0/oce/tests/testthat/test_ad2cp_2.R | 146 oce-1.8-0/oce/tests/testthat/test_ad2cp_3.R | 111 oce-1.8-0/oce/tests/testthat/test_ad2cp_4.R |only oce-1.8-0/oce/tests/testthat/test_adp.R | 79 oce-1.8-0/oce/tests/testthat/test_adv.R | 32 oce-1.8-0/oce/tests/testthat/test_air.R | 8 oce-1.8-0/oce/tests/testthat/test_allclass.R | 11 oce-1.8-0/oce/tests/testthat/test_amsr.R | 51 oce-1.8-0/oce/tests/testthat/test_argo.R | 52 oce-1.8-0/oce/tests/testthat/test_astronomical.R | 3 oce-1.8-0/oce/tests/testthat/test_cm.R | 6 oce-1.8-0/oce/tests/testthat/test_coastline.R | 5 oce-1.8-0/oce/tests/testthat/test_colormap.R | 37 oce-1.8-0/oce/tests/testthat/test_ctd.R | 216 oce-1.8-0/oce/tests/testthat/test_ctd_aml.R | 11 oce-1.8-0/oce/tests/testthat/test_ctd_ssda.R | 1 oce-1.8-0/oce/tests/testthat/test_curl.R | 32 oce-1.8-0/oce/tests/testthat/test_datasets.R | 118 oce-1.8-0/oce/tests/testthat/test_echosounder.R | 45 oce-1.8-0/oce/tests/testthat/test_flags.R | 51 oce-1.8-0/oce/tests/testthat/test_geod.R | 91 oce-1.8-0/oce/tests/testthat/test_hydrographic.R | 48 oce-1.8-0/oce/tests/testthat/test_landsat.R | 26 oce-1.8-0/oce/tests/testthat/test_lisst.R | 31 oce-1.8-0/oce/tests/testthat/test_magnetic_declination.R |only oce-1.8-0/oce/tests/testthat/test_map.R | 5 oce-1.8-0/oce/tests/testthat/test_misc.R | 208 oce-1.8-0/oce/tests/testthat/test_oce.R | 35 oce-1.8-0/oce/tests/testthat/test_odf.R | 7 oce-1.8-0/oce/tests/testthat/test_plot_adp.R |only oce-1.8-0/oce/tests/testthat/test_plot_argo.R |only oce-1.8-0/oce/tests/testthat/test_plot_cm.R |only oce-1.8-0/oce/tests/testthat/test_plot_ctd.R |only oce-1.8-0/oce/tests/testthat/test_plotting.R | 34 oce-1.8-0/oce/tests/testthat/test_rsk.R | 18 oce-1.8-0/oce/tests/testthat/test_sealevel.R | 134 oce-1.8-0/oce/tests/testthat/test_section.R | 27 oce-1.8-0/oce/tests/testthat/test_subset.R | 49 oce-1.8-0/oce/tests/testthat/test_sw.R | 168 oce-1.8-0/oce/tests/testthat/test_tide.R | 37 oce-1.8-0/oce/tests/testthat/test_tidem.R | 19 oce-1.8-0/oce/tests/testthat/test_topo.R | 13 oce-1.8-0/oce/tests/testthat/test_units.R | 3 oce-1.8-0/oce/tests/testthat/test_webtide.R | 2 oce-1.8-0/oce/tests/testthat/test_xbt.R | 7 oce-1.8-0/oce/vignettes/A_oce.Rmd | 20 oce-1.8-0/oce/vignettes/B_ctd.Rmd | 16 oce-1.8-0/oce/vignettes/C_adp.Rmd | 54 oce-1.8-0/oce/vignettes/D_map_projections.Rmd | 50 oce-1.8-0/oce/vignettes/E_flags.Rmd | 36 oce-1.8-0/oce/vignettes/F_subclassing.Rmd | 27 393 files changed, 22734 insertions(+), 22500 deletions(-)
Title: Draw Histograms and Restricted Cubic Splines (RCS)
Description: You can use this function to easily draw a combined histogram and restricted cubic spline.
The function draws the graph through 'ggplot2'. RCS fitting requires the use of the rcs() function of the 'rms' package.
Can fit cox regression, logistic regression. This method was described by Per Kragh (2003) <doi:10.1002/sim.1497>.
Author: Qiang LIU [aut, cre]
Maintainer: Qiang LIU <dege857@163.com>
Diff between ggrcs versions 0.2.9 dated 2023-04-12 and 0.3.0 dated 2023-04-25
DESCRIPTION | 8 +++++--- MD5 | 9 +++++++-- NEWS.md | 4 ++-- build |only inst |only vignettes |only 6 files changed, 14 insertions(+), 7 deletions(-)
Title: Implementation of Fused MGM to Infer 2-Class Networks
Description: Implementation of fused Markov graphical model (FMGM; Park and Won, 2022). The functions include building mixed graphical model (MGM) objects from data, inference of networks using FMGM, stable edge-specific penalty selection (StEPS) for the determination of penalization parameters, and the visualization. For details, please refer to Park and Won (2022) <arXiv:2208.14959>.
Author: Jaehyun Park [aut, cre, cph] ,
Sungho Won [ths]
Maintainer: Jaehyun Park <J.31.Park@gmail.com>
Diff between fusedMGM versions 0.1.0.0 dated 2023-04-14 and 0.1.0.1 dated 2023-04-25
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/MGM.r | 9 +++++++-- 3 files changed, 12 insertions(+), 7 deletions(-)
Title: A Graphic Device that Does Nothing
Description: Provides a non-drawing graphic device for benchmarking purpose.
In order to properly benchmark graphic drawing code it is necessary
to factor out the device implementation itself so that results are not
related to the specific graphics device used during benchmarking. The
'devoid' package implements a graphic device that accepts all the required
calls from R's graphic engine but performs no action. Apart from
benchmarking it is unlikely that this device has any practical use.
Author: Thomas Lin Pedersen [aut, cre],
Posit, PBC [cph]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between devoid versions 0.1.1 dated 2020-08-03 and 0.1.2 dated 2023-04-25
DESCRIPTION | 16 ++++++++-------- MD5 | 10 +++++----- NEWS.md | 4 ++++ README.md | 3 +-- man/figures/README-unnamed-chunk-2-1.png |binary src/void_dev.c | 14 +++++++------- 6 files changed, 25 insertions(+), 22 deletions(-)
Title: Resource Resolver
Description: A resource represents some data or a computation unit. It is
described by a URL and credentials. This package proposes a Resource model
with "resolver" and "client" classes to facilitate the access and the usage of the
resources.
Author: Yannick Marcon [aut, cre] ,
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between resourcer versions 1.3.0 dated 2022-09-30 and 1.4.0 dated 2023-04-25
DESCRIPTION | 12 +-- MD5 | 12 +-- R/DBIResourceConnector.R | 6 + R/HttpFileResourceGetter.R | 4 - R/PostgresResourceConnector.R | 6 - inst/doc/resources-introduction.html | 114 ++++++++++++++++++++++------------- inst/resources/resource.js | 12 +++ 7 files changed, 105 insertions(+), 61 deletions(-)
Title: Regularization Paths for SCAD and MCP Penalized Regression
Models
Description: Fits regularization paths for linear regression, GLM, and Cox
regression models using lasso or nonconvex penalties, in particular the
minimax concave penalty (MCP) and smoothly clipped absolute deviation (SCAD)
penalty, with options for additional L2 penalties (the "elastic net" idea).
Utilities for carrying out cross-validation as well as post-fitting
visualization, summarization, inference, and prediction are also provided.
For more information, see Breheny and Huang (2011) <doi:10.1214/10-AOAS388>
or visit the ncvreg homepage <https://pbreheny.github.io/ncvreg/>.
Author: Patrick Breheny [aut, cre]
Maintainer: Patrick Breheny <patrick-breheny@uiowa.edu>
Diff between ncvreg versions 3.13.0 dated 2021-03-30 and 3.14.1 dated 2023-04-25
ncvreg-3.13.0/ncvreg/data/heart.RData |only ncvreg-3.13.0/ncvreg/man/auc.Rd |only ncvreg-3.13.0/ncvreg/man/cv-ncvreg.Rd |only ncvreg-3.13.0/ncvreg/man/deprecated.Rd |only ncvreg-3.13.0/ncvreg/man/figures |only ncvreg-3.13.0/ncvreg/man/ncvreg-internal.Rd |only ncvreg-3.13.0/ncvreg/man/perm-ncvreg.Rd |only ncvreg-3.13.0/ncvreg/man/plot-cv-ncvreg.Rd |only ncvreg-3.13.0/ncvreg/man/plot-mfdr.Rd |only ncvreg-3.13.0/ncvreg/man/plot-ncvreg.Rd |only ncvreg-3.13.0/ncvreg/man/plot-ncvsurv-func.Rd |only ncvreg-3.13.0/ncvreg/man/predict-ncvsurv.Rd |only ncvreg-3.13.0/ncvreg/man/predict.Rd |only ncvreg-3.13.0/ncvreg/man/summary-cv-ncvreg.Rd |only ncvreg-3.13.0/ncvreg/man/summary-ncvreg.Rd |only ncvreg-3.13.0/ncvreg/src/binomial.c |only ncvreg-3.13.0/ncvreg/src/poisson.c |only ncvreg-3.14.1/ncvreg/DESCRIPTION | 10 ncvreg-3.14.1/ncvreg/MD5 | 154 +++---- ncvreg-3.14.1/ncvreg/NAMESPACE | 59 +- ncvreg-3.14.1/ncvreg/NEWS.md | 21 + ncvreg-3.14.1/ncvreg/R/auc.R | 48 ++ ncvreg-3.14.1/ncvreg/R/cv-ncvreg.R | 128 +++++- ncvreg-3.14.1/ncvreg/R/cv-ncvsurv.R | 36 + ncvreg-3.14.1/ncvreg/R/data.R |only ncvreg-3.14.1/ncvreg/R/lamNames.R | 2 ncvreg-3.14.1/ncvreg/R/local-mfdr.R | 38 + ncvreg-3.14.1/ncvreg/R/logLik.R | 14 ncvreg-3.14.1/ncvreg/R/mfdr.R | 72 +++ ncvreg-3.14.1/ncvreg/R/ncvfit.R | 6 ncvreg-3.14.1/ncvreg/R/ncvreg-package.R |only ncvreg-3.14.1/ncvreg/R/ncvreg.R | 188 ++++++++- ncvreg-3.14.1/ncvreg/R/ncvsurv.R | 163 +++++++ ncvreg-3.14.1/ncvreg/R/perm-ncvreg.R | 82 +++ ncvreg-3.14.1/ncvreg/R/permres-ncvreg.R | 56 ++ ncvreg-3.14.1/ncvreg/R/plot-cv-ncvreg.R | 60 ++ ncvreg-3.14.1/ncvreg/R/plot-mfdr.R | 46 ++ ncvreg-3.14.1/ncvreg/R/plot-ncvreg.R | 43 +- ncvreg-3.14.1/ncvreg/R/plot-ncvsurv-func.R | 34 + ncvreg-3.14.1/ncvreg/R/predict-cv.R | 9 ncvreg-3.14.1/ncvreg/R/predict-surv.R | 100 ++++ ncvreg-3.14.1/ncvreg/R/predict.R | 56 ++ ncvreg-3.14.1/ncvreg/R/residuals.R |only ncvreg-3.14.1/ncvreg/R/std.R | 64 ++- ncvreg-3.14.1/ncvreg/R/summary-cv-ncvreg.R | 68 +++ ncvreg-3.14.1/ncvreg/R/summary-ncvreg.R | 108 ++++- ncvreg-3.14.1/ncvreg/README.md | 8 ncvreg-3.14.1/ncvreg/build/partial.rdb |binary ncvreg-3.14.1/ncvreg/build/vignette.rds |binary ncvreg-3.14.1/ncvreg/inst/CITATION | 14 ncvreg-3.14.1/ncvreg/inst/doc/getting-started.R | 1 ncvreg-3.14.1/ncvreg/inst/doc/getting-started.html | 214 ++++++---- ncvreg-3.14.1/ncvreg/inst/doc/getting-started.rmd | 3 ncvreg-3.14.1/ncvreg/inst/tinytest/auc.R | 3 ncvreg-3.14.1/ncvreg/inst/tinytest/coerce.R | 11 ncvreg-3.14.1/ncvreg/inst/tinytest/cv-ncvreg.R | 8 ncvreg-3.14.1/ncvreg/inst/tinytest/errors-and-warnings.R | 1 ncvreg-3.14.1/ncvreg/inst/tinytest/ncvsurv.R | 107 +++-- ncvreg-3.14.1/ncvreg/inst/tinytest/poisson.R | 4 ncvreg-3.14.1/ncvreg/inst/tinytest/rsq.R | 30 + ncvreg-3.14.1/ncvreg/inst/tinytest/standardize.R | 33 + ncvreg-3.14.1/ncvreg/inst/tinytest/summary.R | 1 ncvreg-3.14.1/ncvreg/man/AUC.Rd |only ncvreg-3.14.1/ncvreg/man/Heart.Rd | 64 +-- ncvreg-3.14.1/ncvreg/man/Lung.Rd | 80 ++- ncvreg-3.14.1/ncvreg/man/Prostate.Rd | 69 +-- ncvreg-3.14.1/ncvreg/man/cv.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/local_mfdr.Rd | 13 ncvreg-3.14.1/ncvreg/man/logLik.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/mfdr.Rd | 63 +-- ncvreg-3.14.1/ncvreg/man/ncvreg-package.Rd | 51 +- ncvreg-3.14.1/ncvreg/man/ncvreg.Rd | 258 ++++++------ ncvreg-3.14.1/ncvreg/man/ncvsurv.Rd | 289 +++++++------- ncvreg-3.14.1/ncvreg/man/perm.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/permres.Rd | 95 ++-- ncvreg-3.14.1/ncvreg/man/plot.cv.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/plot.mfdr.Rd |only ncvreg-3.14.1/ncvreg/man/plot.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/plot.ncvsurv.func.Rd |only ncvreg-3.14.1/ncvreg/man/predict.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/predict.ncvsurv.Rd |only ncvreg-3.14.1/ncvreg/man/residuals.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/std.Rd | 20 ncvreg-3.14.1/ncvreg/man/summary.cv.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/man/summary.ncvreg.Rd |only ncvreg-3.14.1/ncvreg/src/gaussian.c | 63 +-- ncvreg-3.14.1/ncvreg/src/glm.c |only ncvreg-3.14.1/ncvreg/src/mfdr_binomial.c | 2 ncvreg-3.14.1/ncvreg/src/mfdr_cox.c | 2 ncvreg-3.14.1/ncvreg/src/ncvreg_init.c | 28 + ncvreg-3.14.1/ncvreg/src/rawfit_gaussian.c | 7 ncvreg-3.14.1/ncvreg/vignettes/getting-started.rmd | 3 ncvreg-3.14.1/ncvreg/vignettes/web/adaptive-rescaling.rmd |only ncvreg-3.14.1/ncvreg/vignettes/web/getting-started.rmd |only ncvreg-3.14.1/ncvreg/vignettes/web/other-cv-criteria.rmd |only ncvreg-3.14.1/ncvreg/vignettes/web/penalties.rmd | 2 96 files changed, 2338 insertions(+), 874 deletions(-)
Title: Linear Mixed-Effects Models using 'Eigen' and S4
Description: Fit linear and generalized linear mixed-effects models.
The models and their components are represented using S4 classes and
methods. The core computational algorithms are implemented using the
'Eigen' C++ library for numerical linear algebra and 'RcppEigen' "glue".
Author: Douglas Bates [aut] ,
Martin Maechler [aut] ,
Ben Bolker [aut, cre] ,
Steven Walker [aut] ,
Rune Haubo Bojesen Christensen [ctb]
,
Henrik Singmann [ctb] ,
Bin Dai [ctb],
Fabian Scheipl [ctb] ,
Gabor Grothendieck [ctb],
Peter Green [ctb] ,
John Fox [c [...truncated...]
Maintainer: Ben Bolker <bbolker+lme4@gmail.com>
Diff between lme4 versions 1.1-32 dated 2023-03-14 and 1.1-33 dated 2023-04-25
lme4-1.1-32/lme4/inst/tinytest |only lme4-1.1-33/lme4/DESCRIPTION | 6 lme4-1.1-33/lme4/MD5 | 62 ++++----- lme4-1.1-33/lme4/NAMESPACE | 1 lme4-1.1-33/lme4/R/allFit.R | 11 + lme4-1.1-33/lme4/R/bootMer.R | 3 lme4-1.1-33/lme4/R/lmer.R | 156 ++++--------------------- lme4-1.1-33/lme4/R/modular.R | 25 ++-- lme4-1.1-33/lme4/R/plots.R |only lme4-1.1-33/lme4/R/profile.R | 4 lme4-1.1-33/lme4/R/utilities.R | 14 ++ lme4-1.1-33/lme4/build/partial.rdb |binary lme4-1.1-33/lme4/build/vignette.rds |binary lme4-1.1-33/lme4/inst/NEWS.Rd | 29 ++++ lme4-1.1-33/lme4/inst/doc/PLSvGLS.pdf |binary lme4-1.1-33/lme4/inst/doc/Theory.pdf |binary lme4-1.1-33/lme4/inst/doc/lmer.pdf |binary lme4-1.1-33/lme4/inst/doc/lmerperf.html | 2 lme4-1.1-33/lme4/man/VerbAgg.Rd | 6 lme4-1.1-33/lme4/man/ranef.Rd | 9 + lme4-1.1-33/lme4/man/refit.Rd | 6 lme4-1.1-33/lme4/tests/HSAURtrees.R | 6 lme4-1.1-33/lme4/tests/REMLdev.R | 6 lme4-1.1-33/lme4/tests/confint.R | 4 lme4-1.1-33/lme4/tests/drop.R | 4 lme4-1.1-33/lme4/tests/drop1contrasts.R | 4 lme4-1.1-33/lme4/tests/glmer-1.R | 4 lme4-1.1-33/lme4/tests/glmerWarn.R | 10 - lme4-1.1-33/lme4/tests/glmmExt.R | 4 lme4-1.1-33/lme4/tests/hatvalues.R | 4 lme4-1.1-33/lme4/tests/lme4_nlme.R | 4 lme4-1.1-33/lme4/tests/lmer-0.R | 27 ++-- lme4-1.1-33/lme4/tests/testthat/test-methods.R | 41 +++--- 33 files changed, 205 insertions(+), 247 deletions(-)
Title: Parameter Optimizing of ODE-Systems
Description: Enable optimization of parameters of ordinary differential equations.
Therefore, using 'SUNDIALS' to solve the ODE-System (see Hindmarsh, Alan C., Peter N. Brown, Keith E. Grant, Steven L. Lee, Radu Serban, Dan E. Shumaker, and Carol S. Woodward. (2005) <doi:10.1145/1089014.1089020>).
Furthermore, for optimization the particle swarm algorithm is used (see: Akman, Devin, Olcay Akman, and Elsa Schaefer. (2018) <doi:10.1155/2018/9160793> and Sengupta, Saptarshi, Sanchita Basak, and Richard Peters. (2018) <doi:10.3390/make1010010>).
Author: Kraemer Konrad [aut, cre],
Kraemer Johannes [aut],
Heyer Arnd [ths],
University of Stuttgart [uvp],
Institute of Biomaterials and Biomolecular Systems at the University of Stuttgart [his]
| file AUTHORS
Maintainer: Kraemer Konrad <Konrad_kraemer@yahoo.de>
Diff between paropt versions 0.2.1 dated 2021-06-14 and 0.3 dated 2023-04-25
paropt-0.2.1/paropt/R/paropt-package.R |only paropt-0.2.1/paropt/cleanup |only paropt-0.2.1/paropt/configure |only paropt-0.2.1/paropt/configure.ac |only paropt-0.2.1/paropt/inst/doc/paropt.html |only paropt-0.2.1/paropt/inst/docs |only paropt-0.2.1/paropt/inst/examples/final_stateoutput.txt |only paropt-0.2.1/paropt/inst/examples/lb.txt |only paropt-0.2.1/paropt/inst/examples/lbLV.txt |only paropt-0.2.1/paropt/inst/examples/ode.cpp |only paropt-0.2.1/paropt/inst/examples/ode_solving_examples.r |only paropt-0.2.1/paropt/inst/examples/optimized_params.txt |only paropt-0.2.1/paropt/inst/examples/optimizer_examples.r |only paropt-0.2.1/paropt/inst/examples/paramstartLV.txt |only paropt-0.2.1/paropt/inst/examples/predator.pdf |only paropt-0.2.1/paropt/inst/examples/prey.pdf |only paropt-0.2.1/paropt/inst/examples/start.txt |only paropt-0.2.1/paropt/inst/examples/ub.txt |only paropt-0.2.1/paropt/inst/examples/ubLV.txt |only paropt-0.2.1/paropt/inst/include/arkode |only paropt-0.2.1/paropt/inst/include/basic_functions.hpp |only paropt-0.2.1/paropt/inst/include/comparison_fct.hpp |only paropt-0.2.1/paropt/inst/include/cvode/cvode_bandpre.h |only paropt-0.2.1/paropt/inst/include/cvode/cvode_bbdpre.h |only paropt-0.2.1/paropt/inst/include/cvode/cvode_spils.h |only paropt-0.2.1/paropt/inst/include/cvodes |only paropt-0.2.1/paropt/inst/include/ida |only paropt-0.2.1/paropt/inst/include/idas |only paropt-0.2.1/paropt/inst/include/kinsol |only paropt-0.2.1/paropt/inst/include/modify_dataframe.hpp |only paropt-0.2.1/paropt/inst/include/nvector/cuda |only paropt-0.2.1/paropt/inst/include/nvector/nvector_cuda.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_manyvector.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_mpimanyvector.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_mpiplusx.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_openmp.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_openmpdev.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_parallel.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_parhyp.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_petsc.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_pthreads.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_raja.h |only paropt-0.2.1/paropt/inst/include/nvector/nvector_trilinos.h |only paropt-0.2.1/paropt/inst/include/nvector/raja |only paropt-0.2.1/paropt/inst/include/nvector/trilinos |only paropt-0.2.1/paropt/inst/include/optimizer.hpp |only paropt-0.2.1/paropt/inst/include/optimizer_Rcpp_interface.hpp |only paropt-0.2.1/paropt/inst/include/optimizer_Rcpp_interface_Mac.hpp |only paropt-0.2.1/paropt/inst/include/param_interpolation.hpp |only paropt-0.2.1/paropt/inst/include/params.hpp |only paropt-0.2.1/paropt/inst/include/paropt.h |only paropt-0.2.1/paropt/inst/include/paropt_RcppExports.h |only paropt-0.2.1/paropt/inst/include/solver_Rcpp_interface.hpp |only paropt-0.2.1/paropt/inst/include/state.hpp |only paropt-0.2.1/paropt/inst/include/sundials/sundials_band.h |only paropt-0.2.1/paropt/inst/include/sundials/sundials_fconfig.h |only paropt-0.2.1/paropt/inst/include/sundials/sundials_fconfig.in |only paropt-0.2.1/paropt/inst/include/sundials/sundials_fnvector.h |only paropt-0.2.1/paropt/inst/include/sundials/sundials_lapack.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_band.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_cusolversp_batchqr.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_klu.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_lapackband.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_lapackdense.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_pcg.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_spbcgs.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_spfgmr.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_spgmr.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_sptfqmr.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_superludist.h |only paropt-0.2.1/paropt/inst/include/sunlinsol/sunlinsol_superlumt.h |only paropt-0.2.1/paropt/inst/include/sunmatrix/sunmatrix_slunrloc.h |only paropt-0.2.1/paropt/inst/include/sunnonlinsol/sunnonlinsol_petscsnes.h |only paropt-0.2.1/paropt/man/optimizer.Rd |only paropt-0.2.1/paropt/man/optimizer_pointer.Rd |only paropt-0.2.1/paropt/man/paropt-package.Rd |only paropt-0.2.1/paropt/man/solve_ode_system.Rd |only paropt-0.2.1/paropt/man/solve_ode_system_pointer.Rd |only paropt-0.2.1/paropt/src/Makevars.in |only paropt-0.2.1/paropt/src/basic_functions.cpp |only paropt-0.2.1/paropt/src/function_access_in_rcpp.cpp |only paropt-0.2.1/paropt/src/interface_fct.cpp |only paropt-0.2.1/paropt/src/modify_dataframe.cpp |only paropt-0.2.1/paropt/src/ode_example.cpp |only paropt-0.2.1/paropt/src/optimizer_Rcpp_interface.cpp |only paropt-0.2.1/paropt/src/optimizer_Rcpp_interface_Mac.cpp |only paropt-0.2.1/paropt/src/optimizer_access_in_Rcpp.cpp |only paropt-0.2.1/paropt/src/param_interpolation.cpp |only paropt-0.2.1/paropt/src/params.cpp |only paropt-0.2.1/paropt/src/solve_ode_system.cpp |only paropt-0.2.1/paropt/src/solver_Rcpp_interface.cpp |only paropt-0.2.1/paropt/src/state.cpp |only paropt-0.2.1/paropt/src/sundials/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/arkode |only paropt-0.2.1/paropt/src/sundials/cvode/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/cvode/LICENSE |only paropt-0.2.1/paropt/src/sundials/cvode/NOTICE |only paropt-0.2.1/paropt/src/sundials/cvode/README.md |only paropt-0.2.1/paropt/src/sundials/cvode/cvode_bandpre.c |only paropt-0.2.1/paropt/src/sundials/cvode/cvode_bandpre_impl.h |only paropt-0.2.1/paropt/src/sundials/cvode/cvode_bbdpre.c |only paropt-0.2.1/paropt/src/sundials/cvode/cvode_bbdpre_impl.h |only paropt-0.2.1/paropt/src/sundials/cvode/cvode_spils.c |only paropt-0.2.1/paropt/src/sundials/cvode/fcmix |only paropt-0.2.1/paropt/src/sundials/cvode/fmod |only paropt-0.2.1/paropt/src/sundials/cvodes |only paropt-0.2.1/paropt/src/sundials/ida |only paropt-0.2.1/paropt/src/sundials/idas |only paropt-0.2.1/paropt/src/sundials/kinsol |only paropt-0.2.1/paropt/src/sundials/nvector/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/nvector/cuda |only paropt-0.2.1/paropt/src/sundials/nvector/manyvector |only paropt-0.2.1/paropt/src/sundials/nvector/mpiplusx |only paropt-0.2.1/paropt/src/sundials/nvector/openmp |only paropt-0.2.1/paropt/src/sundials/nvector/openmpdev |only paropt-0.2.1/paropt/src/sundials/nvector/parallel |only paropt-0.2.1/paropt/src/sundials/nvector/parhyp |only paropt-0.2.1/paropt/src/sundials/nvector/petsc |only paropt-0.2.1/paropt/src/sundials/nvector/pthreads |only paropt-0.2.1/paropt/src/sundials/nvector/raja |only paropt-0.2.1/paropt/src/sundials/nvector/serial/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/nvector/serial/fmod |only paropt-0.2.1/paropt/src/sundials/nvector/serial/fnvector_serial.c |only paropt-0.2.1/paropt/src/sundials/nvector/serial/fnvector_serial.h |only paropt-0.2.1/paropt/src/sundials/nvector/trilinos |only paropt-0.2.1/paropt/src/sundials/sundials/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sundials/fmod |only paropt-0.2.1/paropt/src/sundials/sundials/sundials_band.c |only paropt-0.2.1/paropt/src/sundials/sundials/sundials_futils.c |only paropt-0.2.1/paropt/src/sundials/sunlinsol/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sunlinsol/band |only paropt-0.2.1/paropt/src/sundials/sunlinsol/cusolversp |only paropt-0.2.1/paropt/src/sundials/sunlinsol/dense/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sunlinsol/dense/fmod |only paropt-0.2.1/paropt/src/sundials/sunlinsol/dense/fsunlinsol_dense.c |only paropt-0.2.1/paropt/src/sundials/sunlinsol/dense/fsunlinsol_dense.h |only paropt-0.2.1/paropt/src/sundials/sunlinsol/klu |only paropt-0.2.1/paropt/src/sundials/sunlinsol/lapackband |only paropt-0.2.1/paropt/src/sundials/sunlinsol/lapackdense |only paropt-0.2.1/paropt/src/sundials/sunlinsol/pcg |only paropt-0.2.1/paropt/src/sundials/sunlinsol/spbcgs |only paropt-0.2.1/paropt/src/sundials/sunlinsol/spfgmr |only paropt-0.2.1/paropt/src/sundials/sunlinsol/spgmr |only paropt-0.2.1/paropt/src/sundials/sunlinsol/sptfqmr |only paropt-0.2.1/paropt/src/sundials/sunlinsol/superludist |only paropt-0.2.1/paropt/src/sundials/sunlinsol/superlumt |only paropt-0.2.1/paropt/src/sundials/sunmatrix/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sunmatrix/band |only paropt-0.2.1/paropt/src/sundials/sunmatrix/dense/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sunmatrix/dense/fmod |only paropt-0.2.1/paropt/src/sundials/sunmatrix/dense/fsunmatrix_dense.c |only paropt-0.2.1/paropt/src/sundials/sunmatrix/dense/fsunmatrix_dense.h |only paropt-0.2.1/paropt/src/sundials/sunmatrix/slunrloc |only paropt-0.2.1/paropt/src/sundials/sunmatrix/sparse |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/fixedpoint/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/fixedpoint/fmod |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/fixedpoint/fsunnonlinsol_fixedpoint.c |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/fixedpoint/fsunnonlinsol_fixedpoint.h |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/newton/CMakeLists.txt |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/newton/fmod |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/newton/fsunnonlinsol_newton.c |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/newton/fsunnonlinsol_newton.h |only paropt-0.2.1/paropt/src/sundials/sunnonlinsol/petscsnes |only paropt-0.3/paropt/DESCRIPTION | 20 paropt-0.3/paropt/MD5 | 693 ---- paropt-0.3/paropt/NAMESPACE | 13 paropt-0.3/paropt/NEWS |only paropt-0.3/paropt/R/RcppExports.R | 245 - paropt-0.3/paropt/R/helper.R |only paropt-0.3/paropt/R/optimizer.R |only paropt-0.3/paropt/R/solver.R |only paropt-0.3/paropt/R/zzz.R | 4 paropt-0.3/paropt/build/vignette.rds |binary paropt-0.3/paropt/inst/AUTHORS | 3 paropt-0.3/paropt/inst/doc/paropt.R | 88 paropt-0.3/paropt/inst/doc/paropt.Rmd | 281 - paropt-0.3/paropt/inst/doc/paropt.pdf |only paropt-0.3/paropt/inst/include/cvode/cvode.h | 90 paropt-0.3/paropt/inst/include/cvode/cvode_diag.h | 2 paropt-0.3/paropt/inst/include/cvode/cvode_direct.h | 9 paropt-0.3/paropt/inst/include/cvode/cvode_ls.h | 21 paropt-0.3/paropt/inst/include/cvode/cvode_proj.h |only paropt-0.3/paropt/inst/include/header.hpp | 108 paropt-0.3/paropt/inst/include/nvector/nvector_serial.h | 43 paropt-0.3/paropt/inst/include/paropt_types.h | 1 paropt-0.3/paropt/inst/include/solver.hpp | 65 paropt-0.3/paropt/inst/include/sundials/sundials_base.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_config.h | 310 +- paropt-0.3/paropt/inst/include/sundials/sundials_config.in | 226 - paropt-0.3/paropt/inst/include/sundials/sundials_context.h |only paropt-0.3/paropt/inst/include/sundials/sundials_context.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_convertibleto.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_dense.h | 332 +- paropt-0.3/paropt/inst/include/sundials/sundials_direct.h | 305 + paropt-0.3/paropt/inst/include/sundials/sundials_export.h |only paropt-0.3/paropt/inst/include/sundials/sundials_futils.h | 2 paropt-0.3/paropt/inst/include/sundials/sundials_iterative.h | 355 +- paropt-0.3/paropt/inst/include/sundials/sundials_linearsolver.h | 146 paropt-0.3/paropt/inst/include/sundials/sundials_linearsolver.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_logger.h |only paropt-0.3/paropt/inst/include/sundials/sundials_math.h | 144 paropt-0.3/paropt/inst/include/sundials/sundials_matrix.h | 78 paropt-0.3/paropt/inst/include/sundials/sundials_matrix.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_memory.h |only paropt-0.3/paropt/inst/include/sundials/sundials_mpi_types.h | 6 paropt-0.3/paropt/inst/include/sundials/sundials_nonlinearsolver.h | 111 paropt-0.3/paropt/inst/include/sundials/sundials_nonlinearsolver.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_nvector.h | 220 - paropt-0.3/paropt/inst/include/sundials/sundials_nvector.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_nvector_senswrapper.h | 4 paropt-0.3/paropt/inst/include/sundials/sundials_profiler.h |only paropt-0.3/paropt/inst/include/sundials/sundials_sycl_policies.hpp |only paropt-0.3/paropt/inst/include/sundials/sundials_types.h | 90 paropt-0.3/paropt/inst/include/sundials/sundials_version.h | 2 paropt-0.3/paropt/inst/include/sunlinsol/sunlinsol_dense.h | 9 paropt-0.3/paropt/inst/include/sunmatrix/sunmatrix_band.h | 22 paropt-0.3/paropt/inst/include/sunmatrix/sunmatrix_dense.h | 14 paropt-0.3/paropt/inst/include/sunmatrix/sunmatrix_sparse.h | 20 paropt-0.3/paropt/inst/include/sunmemory |only paropt-0.3/paropt/inst/include/sunnonlinsol/sunnonlinsol_fixedpoint.h | 32 paropt-0.3/paropt/inst/include/sunnonlinsol/sunnonlinsol_newton.h | 24 paropt-0.3/paropt/inst/tinytest |only paropt-0.3/paropt/man/optimize.Rd |only paropt-0.3/paropt/man/solve.Rd |only paropt-0.3/paropt/src/Makevars |only paropt-0.3/paropt/src/Makevars.win | 61 paropt-0.3/paropt/src/RcppExports.cpp | 125 paropt-0.3/paropt/src/default_error_spline_fct.cpp |only paropt-0.3/paropt/src/optimizer.cpp | 664 +--- paropt-0.3/paropt/src/solver.cpp | 1532 ++++------ paropt-0.3/paropt/src/sundials/band |only paropt-0.3/paropt/src/sundials/cvode/cvode.c | 774 +++-- paropt-0.3/paropt/src/sundials/cvode/cvode_diag.c | 116 paropt-0.3/paropt/src/sundials/cvode/cvode_diag_impl.h | 2 paropt-0.3/paropt/src/sundials/cvode/cvode_direct.c | 2 paropt-0.3/paropt/src/sundials/cvode/cvode_impl.h | 353 +- paropt-0.3/paropt/src/sundials/cvode/cvode_io.c | 714 ++++ paropt-0.3/paropt/src/sundials/cvode/cvode_ls.c | 395 ++ paropt-0.3/paropt/src/sundials/cvode/cvode_ls_impl.h | 27 paropt-0.3/paropt/src/sundials/cvode/cvode_nls.c | 104 paropt-0.3/paropt/src/sundials/cvode/cvode_proj.c |only paropt-0.3/paropt/src/sundials/cvode/cvode_proj_impl.h |only paropt-0.3/paropt/src/sundials/nvector/serial/nvector_serial.c | 153 paropt-0.3/paropt/src/sundials/sparse |only paropt-0.3/paropt/src/sundials/sundials/sundials_context.c |only paropt-0.3/paropt/src/sundials/sundials/sundials_context_impl.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_debug.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_dense.c | 169 - paropt-0.3/paropt/src/sundials/sundials/sundials_direct.c | 150 paropt-0.3/paropt/src/sundials/sundials/sundials_hashmap.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_iterative.c | 405 ++ paropt-0.3/paropt/src/sundials/sundials/sundials_iterative_impl.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_lapack_defs.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_linearsolver.c | 97 paropt-0.3/paropt/src/sundials/sundials/sundials_logger.c |only paropt-0.3/paropt/src/sundials/sundials/sundials_logger_impl.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_math.c | 148 paropt-0.3/paropt/src/sundials/sundials/sundials_matrix.c | 83 paropt-0.3/paropt/src/sundials/sundials/sundials_memory.c |only paropt-0.3/paropt/src/sundials/sundials/sundials_nonlinearsolver.c | 40 paropt-0.3/paropt/src/sundials/sundials/sundials_nvector.c | 562 ++- paropt-0.3/paropt/src/sundials/sundials/sundials_nvector_senswrapper.c | 90 paropt-0.3/paropt/src/sundials/sundials/sundials_profiler.c |only paropt-0.3/paropt/src/sundials/sundials/sundials_reductions.hpp |only paropt-0.3/paropt/src/sundials/sundials/sundials_sycl.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_utils.h |only paropt-0.3/paropt/src/sundials/sundials/sundials_version.c | 34 paropt-0.3/paropt/src/sundials/sunlinsol/dense/sunlinsol_dense.c | 22 paropt-0.3/paropt/src/sundials/sunmatrix/dense/sunmatrix_dense.c | 195 - paropt-0.3/paropt/src/sundials/sunmemory |only paropt-0.3/paropt/src/sundials/sunnonlinsol/fixedpoint/sunnonlinsol_fixedpoint.c | 103 paropt-0.3/paropt/src/sundials/sunnonlinsol/newton/sunnonlinsol_newton.c | 105 paropt-0.3/paropt/src/wrapper_solver.cpp |only paropt-0.3/paropt/tests |only paropt-0.3/paropt/vignettes/REFERENCES.bib | 25 paropt-0.3/paropt/vignettes/paropt.Rmd | 281 - 277 files changed, 7034 insertions(+), 4635 deletions(-)
Title: Cross-Platform File System Operations Based on 'libuv'
Description: A cross-platform interface to file system operations, built
on top of the 'libuv' C library.
Author: Jim Hester [aut],
Hadley Wickham [aut],
Gabor Csardi [aut, cre],
libuv project contributors [cph] ,
Joyent, Inc. and other Node contributors [cph] ,
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between fs versions 1.6.1 dated 2023-02-06 and 1.6.2 dated 2023-04-25
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/path.R | 2 +- build/vignette.rds |binary src/file.cc | 2 +- tests/testthat/test-fs_path.R | 2 +- tests/testthat/test-path.R | 4 ++++ 8 files changed, 21 insertions(+), 13 deletions(-)
Title: United States Centers of Population (Centroids)
Description: Centers of population (centroid) data for census areas in the
United States.
Author: Nik Krieger [aut, cre]
Maintainer: Nik Krieger <nk@case.edu>
Diff between USpopcenters versions 0.1.1 dated 2021-11-09 and 0.2.0 dated 2023-04-25
USpopcenters-0.1.1/USpopcenters/man/US_mean_center2010.Rd |only USpopcenters-0.1.1/USpopcenters/man/US_median_center2010.Rd |only USpopcenters-0.2.0/USpopcenters/DESCRIPTION | 8 USpopcenters-0.2.0/USpopcenters/MD5 | 65 +++--- USpopcenters-0.2.0/USpopcenters/NEWS.md | 6 USpopcenters-0.2.0/USpopcenters/R/block_group.R | 74 ++++++- USpopcenters-0.2.0/USpopcenters/R/county.R | 104 ++++++++-- USpopcenters-0.2.0/USpopcenters/R/entire_US.R | 86 +++----- USpopcenters-0.2.0/USpopcenters/R/state.R | 84 +++++++- USpopcenters-0.2.0/USpopcenters/R/tract.R | 73 ++++++- USpopcenters-0.2.0/USpopcenters/README.md | 16 - USpopcenters-0.2.0/USpopcenters/data/US_mean_center2010.rda |binary USpopcenters-0.2.0/USpopcenters/data/US_mean_center2020.rda |only USpopcenters-0.2.0/USpopcenters/data/US_median_center2010.rda |binary USpopcenters-0.2.0/USpopcenters/data/US_median_center2020.rda |only USpopcenters-0.2.0/USpopcenters/data/block_group2000.rda |binary USpopcenters-0.2.0/USpopcenters/data/block_group2010.rda |binary USpopcenters-0.2.0/USpopcenters/data/block_group2020.rda |only USpopcenters-0.2.0/USpopcenters/data/county2000.rda |binary USpopcenters-0.2.0/USpopcenters/data/county2010.rda |binary USpopcenters-0.2.0/USpopcenters/data/county2020.rda |only USpopcenters-0.2.0/USpopcenters/data/state2000.rda |binary USpopcenters-0.2.0/USpopcenters/data/state2010.rda |binary USpopcenters-0.2.0/USpopcenters/data/state2020.rda |only USpopcenters-0.2.0/USpopcenters/data/tract2000.rda |binary USpopcenters-0.2.0/USpopcenters/data/tract2010.rda |binary USpopcenters-0.2.0/USpopcenters/data/tract2020.rda |only USpopcenters-0.2.0/USpopcenters/man/US_mean_center2020.Rd |only USpopcenters-0.2.0/USpopcenters/man/block_group2000.Rd | 5 USpopcenters-0.2.0/USpopcenters/man/block_group2010.Rd | 9 USpopcenters-0.2.0/USpopcenters/man/block_group2020.Rd |only USpopcenters-0.2.0/USpopcenters/man/county2000.Rd | 16 + USpopcenters-0.2.0/USpopcenters/man/county2010.Rd | 18 + USpopcenters-0.2.0/USpopcenters/man/county2020.Rd |only USpopcenters-0.2.0/USpopcenters/man/state2000.Rd | 21 +- USpopcenters-0.2.0/USpopcenters/man/state2010.Rd | 8 USpopcenters-0.2.0/USpopcenters/man/state2020.Rd |only USpopcenters-0.2.0/USpopcenters/man/tract2000.Rd | 9 USpopcenters-0.2.0/USpopcenters/man/tract2010.Rd | 9 USpopcenters-0.2.0/USpopcenters/man/tract2020.Rd |only 40 files changed, 463 insertions(+), 148 deletions(-)
Title: Time-Dependent Sensitivity Analysis
Description: Functions that can be used to calculate time-dependent state and parameter sensitivities for both continuous- and discrete-time deterministic models. See Ng et al. (in review) <doi:10.1101/2023.04.13.536769> for more information about time-dependent sensitivity analysis.
Author: Wee Hao Ng [aut, cre],
Christopher R. Myers [ctb],
Scott H. McArt [ctb],
Stephen P. Ellner [ctb]
Maintainer: Wee Hao Ng <wn68@cornell.edu>
Diff between tdsa versions 1.0-0 dated 2023-04-20 and 1.0-1 dated 2023-04-25
DESCRIPTION | 10 ++++++---- MD5 | 14 +++++++++++--- NEWS |only build/partial.rdb |binary build/tdsa.pdf |binary build/vignette.rds |only inst |only vignettes |only 8 files changed, 17 insertions(+), 7 deletions(-)
Title: Simulation-Based Regularized Logistic Regression
Description: Regularized (polychotomous) logistic regression
by Gibbs sampling. The package implements subtly different
MCMC schemes with varying efficiency depending on the data type
(binary v. binomial, say) and the desired estimator (regularized maximum
likelihood, or Bayesian maximum a posteriori/posterior mean, etc.) through a
unified interface. For details, see Gramacy & Polson (2012 <doi:10.1214/12-BA719>).
Author: Robert B. Gramacy <rbg@vt.edu>
Maintainer: Robert B. Gramacy <rbg@vt.edu>
Diff between reglogit versions 1.2-6 dated 2018-09-14 and 1.2-7 dated 2023-04-25
ChangeLog | 6 ++++++ DESCRIPTION | 12 ++++++------ MD5 | 14 +++++++------- man/pima.Rd | 2 +- man/predict.reglogit.Rd | 2 +- man/reglogit.Rd | 8 ++++---- src/gibbs.c | 4 ++-- src/init.c | 4 ++-- 8 files changed, 29 insertions(+), 23 deletions(-)
Title: Holistic Generalized Linear Models
Description: Holistic generalized linear models (HGLMs) extend generalized linear models (GLMs) by enabling the possibility to add further constraints to the model. The 'holiglm' package simplifies estimating HGLMs using convex optimization. Additional information about the package can be found in the reference manual, the 'README' and the accompanying paper <doi:10.48550/arXiv.2205.15447>.
Author: Benjamin Schwendinger [aut, cre],
Florian Schwendinger [aut],
Laura Vana [aut]
Maintainer: Benjamin Schwendinger <benjaminschwe@gmail.com>
Diff between holiglm versions 0.2.1 dated 2022-06-13 and 0.2.5 dated 2023-04-25
DESCRIPTION | 16 - MD5 | 73 ++++---- NAMESPACE | 6 R/auxiliary.R | 3 R/constraints.R | 58 +++++- R/hglm.R | 355 +++++++++++++++++++++++++++++---------- R/holiglm-package.R |only R/log-likelihood.R | 39 ---- R/roi.R | 70 +++++-- R/scaling.R |only R/simulate.R | 11 - R/stats.R | 70 +++++++ build |only inst/doc |only inst/tinytest/test_binomial.R | 2 inst/tinytest/test_constraints.R | 2 inst/tinytest/test_gaussian.R | 6 inst/tinytest/test_poisson.R | 11 - man/as.OP.hglm_model.Rd | 18 + man/coef.hglm.Rd |only man/cov_matrix.Rd | 9 man/hglm.Rd | 56 +++++- man/hglm_fit.Rd | 7 man/hglm_model.Rd | 3 man/hglmc.Rd | 14 + man/holiglm-package.Rd | 86 ++++++++- man/include.Rd | 2 man/linear.Rd | 7 man/lower.Rd | 12 + man/pairwise_sign_coherence.Rd | 10 - man/reexports.Rd | 2 man/rhglm.Rd | 6 man/scale_constraint_matrix.Rd |only man/sign_coherence.Rd | 6 man/solution.hglm.Rd | 2 man/update_objective.Rd |only man/upper.Rd | 12 + vignettes |only 38 files changed, 748 insertions(+), 226 deletions(-)
Title: Analysis of Plant Pathogen Pathotype Complexities, Distributions
and Diversity
Description: Analysis of plant pathogen pathotype survey data. Functions
provided calculate distribution of susceptibilities, distribution of
complexities with statistics, pathotype frequency distribution, as well as
diversity indices for pathotypes. This package is meant to be a direct
replacement for Herrmann, Löwer and Schachtel's (1999)
<doi:10.1046/j.1365-3059.1999.00325.x> Habgood-Gilmour Spreadsheet, 'HaGiS',
previously used for pathotype analysis.
Author: Austin G. McCoy [aut, ccp] ,
Zachary Noel [aut, ccp] ,
Adam H. Sparks [aut, cre] ,
Martin Chilvers [aut, ths] ,
Zhian N. Kamvar [ctb, rev] ,
Michigan Soybean Promotion Committee [fnd],
Project GREEEN [fnd],
North Central Soybean Research Program [fnd [...truncated...]
Maintainer: Adam H. Sparks <adamhsparks@gmail.com>
Diff between hagis versions 3.1.4 dated 2022-08-15 and 3.1.6 dated 2023-04-25
hagis-3.1.4/hagis/inst/vector |only hagis-3.1.6/hagis/DESCRIPTION | 8 hagis-3.1.6/hagis/MD5 | 66 hagis-3.1.6/hagis/NAMESPACE | 10 hagis-3.1.6/hagis/NEWS.md | 35 hagis-3.1.6/hagis/R/calculate_complexities.R | 32 hagis-3.1.6/hagis/R/create_binary_matrix.R | 5 hagis-3.1.6/hagis/R/hagis-package.R | 9 hagis-3.1.6/hagis/R/summarize_gene.R | 26 hagis-3.1.6/hagis/R/zzz.R |only hagis-3.1.6/hagis/README.md | 53 hagis-3.1.6/hagis/build/partial.rdb |binary hagis-3.1.6/hagis/build/vignette.rds |binary hagis-3.1.6/hagis/inst/CITATION | 27 hagis-3.1.6/hagis/inst/WORDLIST | 6 hagis-3.1.6/hagis/inst/doc/betadiversity.Rmd | 4 hagis-3.1.6/hagis/inst/doc/betadiversity.html | 2215 +++++----- hagis-3.1.6/hagis/inst/doc/hagis.Rmd | 22 hagis-3.1.6/hagis/inst/doc/hagis.html | 73 hagis-3.1.6/hagis/man/autoplot.hagis.complexities.Rd | 8 hagis-3.1.6/hagis/man/autoplot.hagis.gene.summary.Rd | 8 hagis-3.1.6/hagis/man/calculate_complexities.Rd | 12 hagis-3.1.6/hagis/man/calculate_diversities.Rd | 10 hagis-3.1.6/hagis/man/create_binary_matrix.Rd | 12 hagis-3.1.6/hagis/man/summarize_gene.Rd | 12 hagis-3.1.6/hagis/tests/testthat/_snaps |only hagis-3.1.6/hagis/tests/testthat/test-autoplot_hagis_complexities.R | 12 hagis-3.1.6/hagis/tests/testthat/test-autoplot_rps_summary.R | 12 hagis-3.1.6/hagis/vignettes/betadiversity.Rmd | 4 hagis-3.1.6/hagis/vignettes/hagis.Rmd | 22 30 files changed, 1352 insertions(+), 1351 deletions(-)
Title: Gaussian Process Models for Scalar and Functional Inputs
Description: Construction and smart selection of Gaussian process models
for analysis of computer experiments
with emphasis on treatment of functional inputs that are regularly sampled. This package
offers: (i) flexible modeling of functional-input regression
problems through the fairly general Gaussian process model; (ii)
built-in dimension reduction for functional inputs; (iii)
heuristic optimization of the structural parameters of the model
(e.g., active inputs, kernel function, type of distance).
Metamodeling background is provided in
Betancourt et al. (2020) <doi:10.1016/j.ress.2020.106870>.
The algorithm for structural parameter optimization is described
in <https://hal.archives-ouvertes.fr/hal-02532713>.
Author: Jose Betancourt [cre, aut],
Francois Bachoc [aut],
Thierry Klein [aut],
Jeremy Rohmer [aut],
Yves Deville [ctb],
Deborah Idier [ctb]
Maintainer: Jose Betancourt <djbetancourt@uninorte.edu.co>
Diff between funGp versions 0.3.1 dated 2023-01-21 and 0.3.2 dated 2023-04-25
DESCRIPTION | 6 ++-- MD5 | 25 ++++++++++---------- NEWS.md | 10 ++++++++ R/1_fgpm_Class.R | 34 +++++++++++++++++++++------ R/3_training_F.R | 14 ++++++++--- R/3_training_S.R | 14 ++++++++--- R/3_training_SF.R | 16 ++++++++++--- R/6_updating.R | 59 ++++++++++++++++++++++++++++++++++++++++-------- R/7_blackBoxFunctions.R | 2 - R/8_outilsCode.R | 18 +++++++------- build |only man/black-boxes.Rd | 2 - man/fgpm.Rd | 5 +++- man/update-methods.Rd | 14 +++++++++++ 14 files changed, 166 insertions(+), 53 deletions(-)
Title: Rmetrics - Portfolio Selection and Optimization
Description: A collection of functions to optimize portfolios and to analyze them from different points of view.
Author: Diethelm Wuertz [aut],
Tobias Setz [aut],
Yohan Chalabi [aut],
William Chen [ctb],
Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl <Stefan.Theussl@R-project.org>
Diff between fPortfolio versions 3042.83.1 dated 2020-03-07 and 4023.84 dated 2023-04-25
fPortfolio-3042.83.1/fPortfolio/R/mathprogNLP-donlp2.R |only fPortfolio-3042.83.1/fPortfolio/R/solve-Rdonlp2.R |only fPortfolio-3042.83.1/fPortfolio/data/ECON85.csv.xz |only fPortfolio-3042.83.1/fPortfolio/data/ECON85LONG.csv.xz |only fPortfolio-3042.83.1/fPortfolio/inst/LICENSE_DONLP2 |only fPortfolio-4023.84/fPortfolio/ChangeLog | 8 fPortfolio-4023.84/fPortfolio/DESCRIPTION | 33 - fPortfolio-4023.84/fPortfolio/MD5 | 81 +- fPortfolio-4023.84/fPortfolio/R/backtest-Plots.R | 7 fPortfolio-4023.84/fPortfolio/R/backtest-defaultFunctions.R | 2 fPortfolio-4023.84/fPortfolio/R/backtest-pfolioBacktesting.R | 8 fPortfolio-4023.84/fPortfolio/R/mathprogNLP-nlminb2.R | 231 ++++++++ fPortfolio-4023.84/fPortfolio/R/mathprogNLP.R | 7 fPortfolio-4023.84/fPortfolio/R/methods-show.R | 4 fPortfolio-4023.84/fPortfolio/R/object-portfolioConstraints.R | 12 fPortfolio-4023.84/fPortfolio/R/object-portfolioData.R | 8 fPortfolio-4023.84/fPortfolio/R/object-portfolioSpec.R | 8 fPortfolio-4023.84/fPortfolio/R/portfolio-efficientFrontier.R | 8 fPortfolio-4023.84/fPortfolio/R/portfolio-feasiblePfolio.R | 6 fPortfolio-4023.84/fPortfolio/R/risk-covEstimator.R | 28 - fPortfolio-4023.84/fPortfolio/R/risk-surfaceRisk.R | 273 ---------- fPortfolio-4023.84/fPortfolio/R/solve-Rsocp.R | 40 + fPortfolio-4023.84/fPortfolio/R/utils-NLPgeneral.R | 146 +++-- fPortfolio-4023.84/fPortfolio/R/utils-specs.R | 3 fPortfolio-4023.84/fPortfolio/data/ECON85.csv.gz |only fPortfolio-4023.84/fPortfolio/data/ECON85LONG.csv.gz |only fPortfolio-4023.84/fPortfolio/data/GCCINDEX.RET.rda |binary fPortfolio-4023.84/fPortfolio/data/GCCINDEX.rda |binary fPortfolio-4023.84/fPortfolio/data/LPP2005.RET.rda |binary fPortfolio-4023.84/fPortfolio/data/LPP2005.rda |binary fPortfolio-4023.84/fPortfolio/data/SMALLCAP.RET.rda |binary fPortfolio-4023.84/fPortfolio/data/SMALLCAP.rda |binary fPortfolio-4023.84/fPortfolio/data/SPISECTOR.RET.rda |binary fPortfolio-4023.84/fPortfolio/data/SPISECTOR.rda |binary fPortfolio-4023.84/fPortfolio/data/SWX.RET.rda |binary fPortfolio-4023.84/fPortfolio/data/SWX.rda |binary fPortfolio-4023.84/fPortfolio/inst/ReferenceCard.txt | 18 fPortfolio-4023.84/fPortfolio/man/00fPortfolio-package.Rd | 2 fPortfolio-4023.84/fPortfolio/man/a-class-fPFOLIOSPEC.Rd | 2 fPortfolio-4023.84/fPortfolio/man/mathprog-NLP.Rd | 87 +-- fPortfolio-4023.84/fPortfolio/man/methods-plot.Rd | 39 + fPortfolio-4023.84/fPortfolio/man/nlminb2.Rd |only fPortfolio-4023.84/fPortfolio/man/nlminb2Control.Rd |only fPortfolio-4023.84/fPortfolio/man/portfolio-Constraints.Rd | 2 fPortfolio-4023.84/fPortfolio/man/risk-surfaceRisk.Rd | 23 fPortfolio-4023.84/fPortfolio/man/solver-rfamily.Rd | 4 46 files changed, 553 insertions(+), 537 deletions(-)
Title: Common Base-R Problems Relating to Lists
Description: Utility functions that help with common base-R problems relating to lists.
Lists in base-R are very flexible. This package provides functions to quickly and easily
characterize types of lists. That is, to identify if all elements in a list
are null, data.frames, lists, or fully named lists. Other functionality is provided
for the handling of lists, such as the easy splitting of lists into equally sized
groups, and the unnesting of data.frames within fully named lists.
Author: Richard Aubrey White [aut, cre]
,
CSIDS [cph]
Maintainer: Richard Aubrey White <hello@rwhite.no>
Diff between csutil versions 2022.11.24 dated 2022-11-23 and 2023.4.25 dated 2023-04-25
DESCRIPTION | 8 +++---- MD5 | 22 +++++++++++---------- NAMESPACE | 1 NEWS.md | 10 ++++++--- R/apply_fn_via_hash_table.R |only README.md | 2 - build/vignette.rds |binary inst/doc/csutil.R | 16 +++++++++++++++ inst/doc/csutil.Rmd | 32 ++++++++++++++++++++++++++++--- inst/doc/csutil.html | 42 ++++++++++++++++++++++++++++++++++------- man/apply_fn_via_hash_table.Rd |only man/figures/logo.png |binary vignettes/csutil.Rmd | 32 ++++++++++++++++++++++++++++--- 13 files changed, 134 insertions(+), 31 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-01 0.0.2
2021-05-20 0.0.1
Title: Statistical Analysis in Epidemiology
Description: Functions for demographic and epidemiological analysis in
the Lexis diagram, i.e. register and cohort follow-up data. In
particular representation, manipulation, rate estimation and
simulation for multistate data - the Lexis suite of functions, which
includes interfaces to 'mstate', 'etm' and 'cmprsk' packages.
Contains functions for Age-Period-Cohort and Lee-Carter modeling and
a function for interval censored data and some useful functions for
tabulation and plotting, as well as a number of epidemiological data
sets.
Author: Bendix Carstensen [aut, cre],
Martyn Plummer [aut],
Esa Laara [ctb],
Michael Hills [ctb]
Maintainer: Bendix Carstensen <b@bxc.dk>
Diff between Epi versions 2.47 dated 2022-06-26 and 2.47.1 dated 2023-04-25
Epi-2.47.1/Epi/DESCRIPTION | 6 +- Epi-2.47.1/Epi/MD5 | 105 +++++++++++++++++------------------ Epi-2.47.1/Epi/R/AaJ.Lexis.R | 2 Epi-2.47.1/Epi/R/addCov.Lexis.R | 2 Epi-2.47.1/Epi/R/addDrug.Lexis.R | 2 Epi-2.47.1/Epi/build |only Epi-2.47.1/Epi/data/B.dk.rda |binary Epi-2.47.1/Epi/data/BrCa.rda |binary Epi-2.47.1/Epi/data/DMconv.rda |binary Epi-2.47.1/Epi/data/DMepi.rda |binary Epi-2.47.1/Epi/data/DMlate.rda |binary Epi-2.47.1/Epi/data/DMrand.rda |binary Epi-2.47.1/Epi/data/M.dk.rda |binary Epi-2.47.1/Epi/data/N.dk.rda |binary Epi-2.47.1/Epi/data/S.typh.rda |binary Epi-2.47.1/Epi/data/Y.dk.rda |binary Epi-2.47.1/Epi/data/bdendo.rda |binary Epi-2.47.1/Epi/data/bdendo11.rda |binary Epi-2.47.1/Epi/data/births.rda |binary Epi-2.47.1/Epi/data/blcaIT.rda |binary Epi-2.47.1/Epi/data/brv.rda |binary Epi-2.47.1/Epi/data/diet.rda |binary Epi-2.47.1/Epi/data/ewrates.rda |binary Epi-2.47.1/Epi/data/gmortDK.rda |binary Epi-2.47.1/Epi/data/hivDK.rda |binary Epi-2.47.1/Epi/data/lep.rda |binary Epi-2.47.1/Epi/data/lungDK.rda |binary Epi-2.47.1/Epi/data/mortDK.rda |binary Epi-2.47.1/Epi/data/nickel.rda |binary Epi-2.47.1/Epi/data/occup.rda |binary Epi-2.47.1/Epi/data/pr.rda |binary Epi-2.47.1/Epi/data/st2alb.rda |binary Epi-2.47.1/Epi/data/st2clin.rda |binary Epi-2.47.1/Epi/data/steno2.rda |binary Epi-2.47.1/Epi/data/testisDK.rda |binary Epi-2.47.1/Epi/data/thoro.rda |binary Epi-2.47.1/Epi/inst/doc/addLexis.R | 3 - Epi-2.47.1/Epi/inst/doc/addLexis.pdf |binary Epi-2.47.1/Epi/inst/doc/addLexis.rnw |only Epi-2.47.1/Epi/inst/doc/crisk.R | 14 ++++ Epi-2.47.1/Epi/inst/doc/crisk.pdf |binary Epi-2.47.1/Epi/inst/doc/crisk.rnw |only Epi-2.47.1/Epi/inst/doc/flup.R | 19 +++++- Epi-2.47.1/Epi/inst/doc/flup.pdf |binary Epi-2.47.1/Epi/inst/doc/flup.rnw |only Epi-2.47.1/Epi/inst/doc/simLexis.R | 9 ++- Epi-2.47.1/Epi/inst/doc/simLexis.pdf |binary Epi-2.47.1/Epi/inst/doc/simLexis.rnw |only Epi-2.47.1/Epi/inst/doc/yll.R | 8 ++ Epi-2.47.1/Epi/inst/doc/yll.pdf |binary Epi-2.47.1/Epi/inst/doc/yll.rnw |only Epi-2.47.1/Epi/man/AaJ.Lexis.Rd | 3 - Epi-2.47.1/Epi/man/addCov.Lexis.Rd | 3 - Epi-2.47.1/Epi/man/addDrug.Lexis.Rd | 3 - Epi-2.47/Epi/vignettes/addLexis.tex |only Epi-2.47/Epi/vignettes/crisk.tex |only Epi-2.47/Epi/vignettes/flup.tex |only Epi-2.47/Epi/vignettes/simLexis.tex |only Epi-2.47/Epi/vignettes/yll.tex |only 59 files changed, 108 insertions(+), 71 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-17 2.3.1
2019-04-19 2.3.0
2018-10-08 2.2.0
2018-08-13 2.1.0
2018-04-18 2.0
2014-09-08 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-20 1.2
Title: Parallelized Minimum Redundancy, Maximum Relevance (mRMR)
Description: Computes mutual information matrices from continuous, categorical
and survival variables, as well as feature selection with minimum redundancy,
maximum relevance (mRMR) and a new ensemble mRMR technique. Published in
De Jay et al. (2013) <doi:10.1093/bioinformatics/btt383>.
Author: Nicolas De Jay [aut],
Simon Papillon-Cavanagh [aut],
Catharina Olsen [aut],
Gianluca Bontempi [aut],
Bo Li [aut],
Christopher Eeles [ctb],
Benjamin Haibe-Kains [aut, cre]
Maintainer: Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca>
Diff between mRMRe versions 2.1.2 dated 2021-09-04 and 2.1.2.1 dated 2023-04-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- build/vignette.rds |binary data/cgps.rda |binary inst/doc/mRMRe.pdf |binary 5 files changed, 7 insertions(+), 7 deletions(-)
Title: Bayesian Screening and Variable Selection
Description: Performs Bayesian variable screening and selection for ultra-high dimensional linear regression models.
Author: Dongjin Li [aut, cre], Somak Dutta [aut], Vivekananda Roy [ctb]
Maintainer: Dongjin Li <liyangxiaobei@gmail.com>
Diff between bravo versions 2.1.2 dated 2021-11-12 and 2.2.1 dated 2023-04-25
DESCRIPTION | 8 ++-- MD5 | 8 ++-- R/addvar.r | 2 - R/bits.r | 102 +++++++++--------------------------------------------------- man/bits.Rd | 4 +- 5 files changed, 28 insertions(+), 96 deletions(-)