Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general engine for big data
processing, see <http://spark.apache.org>. This package supports connecting to
local and remote Apache Spark clusters, provides a 'dplyr' compatible back-end,
and provides an interface to Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut],
Kevin Kuo [aut] (<https://orcid.org/0000-0001-7803-7901>),
Kevin Ushey [aut],
JJ Allaire [aut],
Samuel Macedo [ctb],
Hossein Falaki [aut],
Lu Wang [aut],
Andy Zhang [aut],
Yitao Li [aut, cre] (<https://orcid.org/0000-0002-1261-905X>),
Jozef Hajnala [ctb],
Maciej Szymkiewicz [ctb] (<https://orcid.org/0000-0003-1469-9396>),
Wil Davis [ctb],
RStudio [cph],
The Apache Software Foundation [aut, cph]
Maintainer: Yitao Li <yitao@rstudio.com>
Diff between sparklyr versions 1.4.0 dated 2020-09-16 and 1.5.0 dated 2020-11-25
sparklyr-1.4.0/sparklyr/R/logs |only sparklyr-1.4.0/sparklyr/R/metastore_db |only sparklyr-1.5.0/sparklyr/DESCRIPTION | 52 - sparklyr-1.5.0/sparklyr/MD5 | 321 +----- sparklyr-1.5.0/sparklyr/NAMESPACE | 22 sparklyr-1.5.0/sparklyr/NEWS.md | 95 + sparklyr-1.5.0/sparklyr/R/arrow_data.R | 56 - sparklyr-1.5.0/sparklyr/R/browse_url.R |only sparklyr-1.5.0/sparklyr/R/config_settings.R | 1 sparklyr-1.5.0/sparklyr/R/connection_progress.R | 5 sparklyr-1.5.0/sparklyr/R/connection_viewer.R | 6 sparklyr-1.5.0/sparklyr/R/core_deserialize.R | 4 sparklyr-1.5.0/sparklyr/R/core_worker_config.R | 4 sparklyr-1.5.0/sparklyr/R/data_copy.R | 191 +-- sparklyr-1.5.0/sparklyr/R/dbi_spark_connection.R | 14 sparklyr-1.5.0/sparklyr/R/do_spark.R | 91 + sparklyr-1.5.0/sparklyr/R/dplyr_hof.R | 11 sparklyr-1.5.0/sparklyr/R/dplyr_spark_connection.R | 148 ++ sparklyr-1.5.0/sparklyr/R/dplyr_sql.R | 193 +++ sparklyr-1.5.0/sparklyr/R/install_spark_versions.R | 2 sparklyr-1.5.0/sparklyr/R/livy_connection.R | 128 -- sparklyr-1.5.0/sparklyr/R/reexports.R | 11 sparklyr-1.5.0/sparklyr/R/sdf_interface.R | 210 +++- sparklyr-1.5.0/sparklyr/R/sdf_sequence.R | 4 sparklyr-1.5.0/sparklyr/R/sdf_unnest_longer.R |only sparklyr-1.5.0/sparklyr/R/sdf_unnest_wider.R |only sparklyr-1.5.0/sparklyr/R/shell_connection.R | 26 sparklyr-1.5.0/sparklyr/R/spark_apply.R | 22 sparklyr-1.5.0/sparklyr/R/spark_apply_bundle.R | 5 sparklyr-1.5.0/sparklyr/R/spark_connection.R | 58 - sparklyr-1.5.0/sparklyr/R/stratified_sample.R |only sparklyr-1.5.0/sparklyr/R/stream_data.R | 4 sparklyr-1.5.0/sparklyr/R/stream_operations.R | 137 ++ sparklyr-1.5.0/sparklyr/R/tables_spark.R | 2 sparklyr-1.5.0/sparklyr/R/tidyr_nest.R | 3 sparklyr-1.5.0/sparklyr/R/tidyr_pivot_longer.R | 1 sparklyr-1.5.0/sparklyr/R/tidyr_pivot_wider.R | 4 sparklyr-1.5.0/sparklyr/R/tidyr_unnest.R | 2 sparklyr-1.5.0/sparklyr/R/tidyr_utils.R | 41 sparklyr-1.5.0/sparklyr/R/utils.R | 14 sparklyr-1.5.0/sparklyr/R/worker_apply.R | 47 sparklyr-1.5.0/sparklyr/inst/extdata/versions.json | 42 sparklyr-1.5.0/sparklyr/inst/java/sparklyr-1.5-2.10.jar |binary sparklyr-1.5.0/sparklyr/inst/java/sparklyr-1.6-2.10.jar |binary sparklyr-1.5.0/sparklyr/inst/java/sparklyr-2.0-2.11.jar |binary sparklyr-1.5.0/sparklyr/inst/java/sparklyr-2.3-2.11.jar |binary sparklyr-1.5.0/sparklyr/inst/java/sparklyr-2.4-2.11.jar |binary sparklyr-1.5.0/sparklyr/inst/java/sparklyr-2.4-2.12.jar |binary sparklyr-1.5.0/sparklyr/inst/java/sparklyr-3.0-2.12.jar |binary sparklyr-1.5.0/sparklyr/inst/java/sparklyr-master-2.12.jar |binary sparklyr-1.5.0/sparklyr/java/embedded_sources.R | 55 - sparklyr-1.5.0/sparklyr/java/spark-1.5.2/collectors.scala | 40 sparklyr-1.5.0/sparklyr/java/spark-1.5.2/handler.scala | 16 sparklyr-1.5.0/sparklyr/java/spark-1.5.2/partitionutils.scala |only sparklyr-1.5.0/sparklyr/java/spark-1.5.2/rutils.scala |only sparklyr-1.5.0/sparklyr/java/spark-1.5.2/samplingutils.scala | 67 - sparklyr-1.5.0/sparklyr/java/spark-1.5.2/serializer.scala | 518 +++++----- sparklyr-1.5.0/sparklyr/java/spark-1.5.2/sparksqlutils.scala |only sparklyr-1.5.0/sparklyr/java/spark-1.5.2/stream.scala | 28 sparklyr-1.5.0/sparklyr/java/spark-1.5.2/strsplit.scala |only sparklyr-1.5.0/sparklyr/java/spark-1.5.2/udfutils.scala | 9 sparklyr-1.5.0/sparklyr/java/spark-1.5.2/utils.scala | 147 ++ sparklyr-1.5.0/sparklyr/java/spark-1.6.0/cumprod.scala |only sparklyr-1.5.0/sparklyr/java/spark-1.6.0/udfutils.scala |only sparklyr-1.5.0/sparklyr/java/spark-2.0.0/partitionutils.scala |only sparklyr-1.5.0/sparklyr/java/spark-2.0.0/sparksqlutils.scala |only sparklyr-1.5.0/sparklyr/java/spark-2.0.0/streamutils.scala |only sparklyr-1.5.0/sparklyr/java/spark-3.0.0/stratifiedsamplingutils.scala |only sparklyr-1.5.0/sparklyr/man/arrow_enabled_object.Rd |only sparklyr-1.5.0/sparklyr/man/distinct.Rd |only sparklyr-1.5.0/sparklyr/man/grapes-greater-than-grapes.Rd | 4 sparklyr-1.5.0/sparklyr/man/join.tbl_spark.Rd | 18 sparklyr-1.5.0/sparklyr/man/pipe.Rd | 3 sparklyr-1.5.0/sparklyr/man/registerDoSpark.Rd | 11 sparklyr-1.5.0/sparklyr/man/sdf_copy_to.Rd | 3 sparklyr-1.5.0/sparklyr/man/sdf_expand_grid.Rd |only sparklyr-1.5.0/sparklyr/man/sdf_partition_sizes.Rd |only sparklyr-1.5.0/sparklyr/man/sdf_quantile.Rd | 3 sparklyr-1.5.0/sparklyr/man/sdf_seq.Rd | 4 sparklyr-1.5.0/sparklyr/man/sdf_unnest_longer.Rd |only sparklyr-1.5.0/sparklyr/man/sdf_unnest_wider.Rd |only sparklyr-1.5.0/sparklyr/man/stream_lag.Rd |only sparklyr-1.5.0/sparklyr/man/stream_read_delta.Rd | 2 sparklyr-1.5.0/sparklyr/man/stream_write_delta.Rd | 2 sparklyr-1.5.0/sparklyr/man/sub-.tbl_spark.Rd |only 85 files changed, 1772 insertions(+), 1135 deletions(-)
Title: A Toolbox for Manipulating Biological Sequences
Description: Classes and functions to work with biological sequences (DNA, RNA and amino acid sequences).
Implements S3 infrastructure to work with biological sequences as described in Keck (2020) <doi:10.1111/2041-210X.13490>.
Provides a collection of functions to perform biological conversion among classes
(transcription, translation) and basic operations on sequences
(detection, selection and replacement based on positions or patterns).
The package also provides functions to import and export sequences from and to other package formats.
Author: Francois Keck [aut, cre, cph] (<https://orcid.org/0000-0002-3323-4167>)
Maintainer: Francois Keck <francois.keck@gmail.com>
Diff between bioseq versions 0.1.1 dated 2020-07-26 and 0.1.2 dated 2020-11-25
DESCRIPTION | 10 - MD5 | 115 ++++++++++---------- NEWS.md | 21 +++ R/def_aa.R | 3 R/def_dna.R | 3 R/def_rna.R | 3 R/gui_wrappers.R | 14 -- R/print_format.R | 3 R/read_write_fasta.R | 14 ++ R/zzz.R |only README.md | 6 + inst/CITATION |only inst/doc/intro-bioseq.html | 64 +++++++++++ inst/doc/ref_database.html | 128 +++++++++++++++++------ man/aa.Rd | 4 man/aliview.Rd | 10 + man/as-tibble-ape.Rd | 12 +- man/as-tibble-bioseq.Rd | 12 +- man/as_AAbin.Rd | 12 +- man/as_DNAbin.Rd | 12 +- man/as_aa.Rd | 12 +- man/as_dna.Rd | 12 +- man/as_rna.Rd | 12 +- man/as_seqinr_alignment.Rd | 12 +- man/bioseq-package.Rd | 6 - man/dna.Rd | 4 man/figures/logo.png |only man/figures/logo.svg |only man/fragilaria.Rd | 4 man/read_fasta.Rd | 3 man/rev_complement.Rd | 6 - man/rna.Rd | 4 man/seaview.Rd | 8 + man/seq-replace.Rd | 25 ++-- man/seq_cluster.Rd | 3 man/seq_combine.Rd | 25 ++-- man/seq_consensus.Rd | 6 - man/seq_count_pattern.Rd | 25 ++-- man/seq_crop_pattern.Rd | 25 ++-- man/seq_crop_position.Rd | 25 ++-- man/seq_detect_pattern.Rd | 25 ++-- man/seq_disambiguate_IUPAC.Rd | 9 + man/seq_extract_pattern.Rd | 25 ++-- man/seq_extract_position.Rd | 25 ++-- man/seq_nchar.Rd | 9 + man/seq_nseq.Rd | 9 + man/seq_remove_pattern.Rd | 25 ++-- man/seq_remove_position.Rd | 25 ++-- man/seq_replace_position.Rd | 25 ++-- man/seq_rev_translate.Rd | 6 - man/seq_spellout.Rd | 9 + man/seq_split_kmer.Rd | 25 ++-- man/seq_split_pattern.Rd | 25 ++-- man/seq_stat_gc.Rd | 9 + man/seq_stat_prop.Rd | 9 + man/seq_translate.Rd | 7 - man/transcription.Rd | 7 - man/write_fasta.Rd | 3 tests/testthat/example_fasta_multi_chevron.fasta |only tests/testthat/test-print-methods.R | 30 ++--- tests/testthat/test-read-write-fasta.R | 25 ++++ 61 files changed, 642 insertions(+), 353 deletions(-)
Title: Functions for Base Types and Core R and 'Tidyverse' Features
Description: A toolbox for working with base types, core R features
like the condition system, and core 'Tidyverse' features like tidy
evaluation.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between rlang versions 0.4.8 dated 2020-10-08 and 0.4.9 dated 2020-11-25
rlang-0.4.8/rlang/man/parse_quo.Rd |only rlang-0.4.8/rlang/tests/testthat/test-exec.R |only rlang-0.4.9/rlang/DESCRIPTION | 8 rlang-0.4.9/rlang/MD5 | 153 ++++++++--------- rlang-0.4.9/rlang/NAMESPACE | 7 rlang-0.4.9/rlang/NEWS.md | 65 +++++++ rlang-0.4.9/rlang/R/arg.R | 2 rlang-0.4.9/rlang/R/attr.R | 48 +++++ rlang-0.4.9/rlang/R/call.R | 2 rlang-0.4.9/rlang/R/cnd-abort.R | 20 +- rlang-0.4.9/rlang/R/cnd-entrace.R | 16 + rlang-0.4.9/rlang/R/cnd-error.R | 13 + rlang-0.4.9/rlang/R/cnd-handlers.R | 2 rlang-0.4.9/rlang/R/cnd-message.R | 2 rlang-0.4.9/rlang/R/cnd-signal.R | 66 ++++--- rlang-0.4.9/rlang/R/cnd.R | 32 +-- rlang-0.4.9/rlang/R/compat-zeallot.R |only rlang-0.4.9/rlang/R/deparse.R | 10 + rlang-0.4.9/rlang/R/dots.R | 3 rlang-0.4.9/rlang/R/env-binding.R | 20 ++ rlang-0.4.9/rlang/R/env-special.R | 14 + rlang-0.4.9/rlang/R/env.R | 31 +++ rlang-0.4.9/rlang/R/eval-tidy.R | 3 rlang-0.4.9/rlang/R/eval.R | 54 +++++- rlang-0.4.9/rlang/R/fn.R | 4 rlang-0.4.9/rlang/R/lifecycle-retired.R | 2 rlang-0.4.9/rlang/R/lifecycle.R | 2 rlang-0.4.9/rlang/R/nse-defuse.R | 47 +++++ rlang-0.4.9/rlang/R/parse.R | 53 +++-- rlang-0.4.9/rlang/R/utils.R | 17 - rlang-0.4.9/rlang/build/rlang.pdf |binary rlang-0.4.9/rlang/man/abort.Rd | 31 ++- rlang-0.4.9/rlang/man/cnd.Rd | 22 -- rlang-0.4.9/rlang/man/cnd_signal.Rd | 19 -- rlang-0.4.9/rlang/man/enquo0.Rd |only rlang-0.4.9/rlang/man/env_bind.Rd | 9 + rlang-0.4.9/rlang/man/env_browse.Rd |only rlang-0.4.9/rlang/man/env_has.Rd | 4 rlang-0.4.9/rlang/man/env_print.Rd | 6 rlang-0.4.9/rlang/man/env_unbind.Rd | 3 rlang-0.4.9/rlang/man/format_error_bullets.Rd | 2 rlang-0.4.9/rlang/man/inject.Rd |only rlang-0.4.9/rlang/man/nse-defuse.Rd | 4 rlang-0.4.9/rlang/man/parse_expr.Rd | 37 +++- rlang-0.4.9/rlang/man/parse_quosure.Rd | 5 rlang-0.4.9/rlang/man/search_envs.Rd | 7 rlang-0.4.9/rlang/man/tidyeval-data.Rd | 3 rlang-0.4.9/rlang/man/zap_srcref.Rd |only rlang-0.4.9/rlang/src/Makevars | 1 rlang-0.4.9/rlang/src/capture.c | 2 rlang-0.4.9/rlang/src/export/exported.c | 30 +++ rlang-0.4.9/rlang/src/export/init.c | 40 +++- rlang-0.4.9/rlang/src/internal.c | 1 rlang-0.4.9/rlang/src/internal/arg.c | 11 - rlang-0.4.9/rlang/src/internal/dots.c | 27 +-- rlang-0.4.9/rlang/src/internal/env-binding.c | 2 rlang-0.4.9/rlang/src/internal/eval-tidy.c | 43 +++- rlang-0.4.9/rlang/src/internal/nse-defuse.c |only rlang-0.4.9/rlang/src/internal/utils.c | 28 +++ rlang-0.4.9/rlang/src/internal/utils.h | 3 rlang-0.4.9/rlang/src/lib/c-utils.h |only rlang-0.4.9/rlang/src/lib/cnd.h | 2 rlang-0.4.9/rlang/src/lib/parse.c | 28 ++- rlang-0.4.9/rlang/src/lib/parse.h | 2 rlang-0.4.9/rlang/src/lib/rlang.c | 2 rlang-0.4.9/rlang/src/lib/rlang.h | 9 + rlang-0.4.9/rlang/src/version.c | 2 rlang-0.4.9/rlang/tests/sink.R | 16 - rlang-0.4.9/rlang/tests/testthat/helper-rlang.R | 15 + rlang-0.4.9/rlang/tests/testthat/test-attr.R | 39 ++++ rlang-0.4.9/rlang/tests/testthat/test-c-api.R | 2 rlang-0.4.9/rlang/tests/testthat/test-cnd-entrace.R | 19 ++ rlang-0.4.9/rlang/tests/testthat/test-cnd-handlers.R | 5 rlang-0.4.9/rlang/tests/testthat/test-cnd-signal.R | 25 ++ rlang-0.4.9/rlang/tests/testthat/test-compat-zeallot.R |only rlang-0.4.9/rlang/tests/testthat/test-deparse.R | 5 rlang-0.4.9/rlang/tests/testthat/test-env.R | 13 + rlang-0.4.9/rlang/tests/testthat/test-eval-tidy.R | 10 - rlang-0.4.9/rlang/tests/testthat/test-eval.R |only rlang-0.4.9/rlang/tests/testthat/test-fn.R | 25 ++ rlang-0.4.9/rlang/tests/testthat/test-nse-defuse.R | 24 ++ rlang-0.4.9/rlang/tests/testthat/test-nse-force.R | 6 rlang-0.4.9/rlang/tests/testthat/test-utils.R | 6 83 files changed, 967 insertions(+), 324 deletions(-)
Title: Create Credit State Migration (Transition) Matrices
Description: Tools to help convert credit risk data at two time points
into traditional credit state migration (aka, "transition") matrices.
At a higher level, 'migrate' is intended to help an analyst understand
how risk moved in their credit portfolio over a time interval.
References to this methodology include:
1. Schuermann, T. (2008) <doi:10.1002/9780470061596.risk0409>.
2. Perederiy, V. (2017) <arXiv:1708.00062>.
Author: Michael Thomas [aut, cre],
Brad Lindblad [ctb]
Maintainer: Michael Thomas <mthomas@ketchbrookanalytics.com>
Diff between migrate versions 0.1.0 dated 2020-11-24 and 0.2.0 dated 2020-11-25
DESCRIPTION | 6 +- MD5 | 19 +++--- NEWS.md | 4 + R/migrate.R | 135 +++++++++++++++++++++++-------------------------- README.md | 37 +++++++++++++ inst/doc/migrate.R | 51 +++++++++--------- inst/doc/migrate.Rmd | 15 ++--- inst/doc/migrate.html | 53 +++++++++++++++---- man/figures/gt_tbl.png |only man/migrate.Rd | 41 +++++--------- vignettes/migrate.Rmd | 15 ++--- 11 files changed, 218 insertions(+), 158 deletions(-)
Title: Identifying Functional Polymorphisms
Description: A suite for identifying causal models using relative concordances and identifying causal polymorphisms in case-control genetic association data, especially with large controls re-sequenced data.
Author: Park L
Maintainer: Leeyoung Park <lypark@yonsei.ac.kr>
Diff between IFP versions 0.2.3 dated 2020-10-26 and 0.2.4 dated 2020-11-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- man/iter.mcmc.Rd | 7 +++++-- man/lrt.G.Rd | 7 +++++-- man/lrt.Rd | 3 +++ 5 files changed, 20 insertions(+), 11 deletions(-)
Title: Analysis and Simulation of Plant Disease Progress Curves
Description: Analysis and visualization of plant disease progress curve data. Functions for
fitting two-parameter population dynamics models (exponential, monomolecular, logistic
and Gompertz) to proportion data for single or multiple epidemics using either linear
or no-linear regression. Statistical and visual outputs are provided to aid in model
selection. Synthetic curves can be simulated for any of the models given the parameters.
See Laurence V. Madden, Gareth Hughes, and Frank van den Bosch (2007) <doi:10.1094/9780890545058>
for further information on the methods.
Author: Kaique dos S. Alves [aut, cre]
(<https://orcid.org/0000-0001-9187-0252>),
Emerson M. Del Ponte [aut] (<https://orcid.org/0000-0003-4398-409X>)
Maintainer: Kaique dos S. Alves <kaiquedsalves@gmail.com>
Diff between epifitter versions 0.1.0 dated 2020-10-29 and 0.2.0 dated 2020-11-25
DESCRIPTION | 6 MD5 | 17 - NEWS.md |only R/fit_lin.R | 32 +- R/fit_nlin.R | 4 R/fit_nlin2.R | 14 R/sim_monomolecular.R | 10 README.md | 12 inst/doc/fitting.html | 734 +++++++++++++++++++++++------------------------ inst/doc/simulation.html | 378 +++++++++++------------- 10 files changed, 601 insertions(+), 606 deletions(-)
Title: Prioritizing Cancer Driver Genes Using Genomics Data
Description: Cancer genomes contain large numbers of somatic alterations but few
genes drive tumor development. Identifying cancer driver genes is critical
for precision oncology. Most of current approaches either identify driver
genes based on mutational recurrence or using estimated scores predicting
the functional consequences of mutations. 'driveR' is a tool for
personalized or batch analysis of genomic data for driver gene prioritization
by combining genomic information and prior biological knowledge. As features,
'driveR' uses coding impact metaprediction scores, non-coding impact scores,
somatic copy number alteration scores, hotspot gene/double-hit gene
condition, 'phenolyzer' gene scores and memberships to cancer-related KEGG
pathways. It uses these features to estimate cancer-type-specific
probability for each gene of being a cancer driver using the related task of
a multi-task learning classification model. The method is described in detail
in Ulgen E, Sezerman OU. 2020. driveR: A Novel Method for Prioritizing Cancer
Driver Genes Using Somatic Genomics Data. bioRxiv
<doi:10.1101/2020.11.10.376707>.
Author: Ege Ulgen [aut, cre, cph] (<https://orcid.org/0000-0003-2090-3621>)
Maintainer: Ege Ulgen <egeulgen@gmail.com>
Diff between driveR versions 0.2.0 dated 2020-11-19 and 0.2.1 dated 2020-11-25
DESCRIPTION | 13 ++++------ MD5 | 28 +++++++++++------------ NAMESPACE | 1 NEWS.md | 24 +++++++++++++++---- R/core_functions.R | 4 ++- R/data.R | 5 ++-- R/sysdata.rda |binary README.md | 6 ++++ data/example_cohort_features_table.rda |binary data/example_features_table.rda |binary data/specific_thresholds.rda |binary inst/doc/how_to_use.html | 40 ++++++++++++++++----------------- man/KEGG_cancer_pathways.Rd | 2 - man/MCR_table.Rd | 3 +- tests/testthat/test-core_functions.R | 4 ++- 15 files changed, 78 insertions(+), 52 deletions(-)
Title: Tunes AdaBoost, Elastic Net, Support Vector Machines, and
Gradient Boosting Machines
Description: Contains two functions that are intended to make
tuning supervised learning methods easy. The eztune function uses a
genetic algorithm or Hooke-Jeeves optimizer to find the best
set of tuning parameters. The user can choose the optimizer, the
learning method, and if optimization will be based on accuracy
obtained through validation error, cross validation, or resubstitution.
The function eztune.cv will compute a cross validated error rate. The purpose
of eztune_cv is to provide a cross validated accuracy or MSE when
resubstitution or validation data are used for optimization because
error measures from both approaches can be misleading.
Author: Jill Lundell [aut, cre]
Maintainer: Jill Lundell <jflundell@gmail.com>
Diff between EZtune versions 2.0.0 dated 2019-06-29 and 3.0.0 dated 2020-11-25
EZtune-2.0.0/EZtune/R/misc.R |only EZtune-2.0.0/EZtune/data/datalist |only EZtune-2.0.0/EZtune/inst/doc/EZtune.R |only EZtune-2.0.0/EZtune/inst/doc/EZtune.Rmd |only EZtune-2.0.0/EZtune/inst/doc/EZtune.html |only EZtune-2.0.0/EZtune/vignettes/EZtune.Rmd |only EZtune-3.0.0/EZtune/DESCRIPTION | 14 - EZtune-3.0.0/EZtune/MD5 | 65 ++++--- EZtune-3.0.0/EZtune/NAMESPACE | 12 - EZtune-3.0.0/EZtune/R/ada_bin.R | 64 +++---- EZtune-3.0.0/EZtune/R/ada_bin_ga.R | 66 +++---- EZtune-3.0.0/EZtune/R/cv_tests.R | 234 +++++++++++++++----------- EZtune-3.0.0/EZtune/R/dummy.R |only EZtune-3.0.0/EZtune/R/en_bin.R |only EZtune-3.0.0/EZtune/R/en_bin_ga.R |only EZtune-3.0.0/EZtune/R/en_reg.R |only EZtune-3.0.0/EZtune/R/en_reg_ga.R |only EZtune-3.0.0/EZtune/R/eztune.R | 98 ++++++---- EZtune-3.0.0/EZtune/R/eztune_cv.R | 31 ++- EZtune-3.0.0/EZtune/R/findn.R |only EZtune-3.0.0/EZtune/R/gbm_bin.R | 79 ++++---- EZtune-3.0.0/EZtune/R/gbm_bin_ga.R | 82 ++++----- EZtune-3.0.0/EZtune/R/gbm_reg.R | 64 +++---- EZtune-3.0.0/EZtune/R/gbm_reg_ga.R | 63 +++---- EZtune-3.0.0/EZtune/R/loss.R |only EZtune-3.0.0/EZtune/R/svm_bin.R | 75 ++++---- EZtune-3.0.0/EZtune/R/svm_bin_ga.R | 76 +++++--- EZtune-3.0.0/EZtune/R/svm_reg.R | 67 ++++--- EZtune-3.0.0/EZtune/R/svm_reg_ga.R | 66 ++++--- EZtune-3.0.0/EZtune/README.md |only EZtune-3.0.0/EZtune/build/vignette.rds |binary EZtune-3.0.0/EZtune/inst/CITATION | 28 +-- EZtune-3.0.0/EZtune/inst/doc/my-vignette.R |only EZtune-3.0.0/EZtune/inst/doc/my-vignette.Rmd |only EZtune-3.0.0/EZtune/inst/doc/my-vignette.html |only EZtune-3.0.0/EZtune/man/eztune.Rd | 82 +++++---- EZtune-3.0.0/EZtune/man/eztune_cv.Rd | 109 ++++++------ EZtune-3.0.0/EZtune/man/lichen.Rd | 184 ++++++++++---------- EZtune-3.0.0/EZtune/man/lichenTest.Rd | 160 +++++++++-------- EZtune-3.0.0/EZtune/man/mullein.Rd | 160 +++++++++-------- EZtune-3.0.0/EZtune/man/mulleinTest.Rd | 148 ++++++++-------- EZtune-3.0.0/EZtune/vignettes/eztune.bib |only EZtune-3.0.0/EZtune/vignettes/my-vignette.Rmd |only 43 files changed, 1090 insertions(+), 937 deletions(-)
Title: Package for Reading Binary Files
Description: Functions and analytics for GENEA-compatible accelerometer data into R objects.
See topic 'GENEAread' for an introduction to the package.
See <https://www.activinsights.com/products/geneactiv/> for more details on the GENEActiv device.
Author: Zhou Fang [aut],
Joss Langford [aut],
Charles Sweetland [aut, cre]
Maintainer: Charles Sweetland <charles@sweetland-solutions.co.uk>
Diff between GENEAread versions 2.0.8 dated 2019-10-30 and 2.0.9 dated 2020-11-25
DESCRIPTION | 10 MD5 | 34 - R/GRtime.r | 4 R/Recalibrate.R | 96 ++-- R/get.intervals.r | 10 R/header.info.R | 217 ++++----- R/read.bin.R | 1025 +++++++++++++++++++++++---------------------- R/stftmod.R | 2 man/AccData.Rd | 4 man/GENEActiv.calibrate.Rd | 12 man/GENEAread-package.Rd | 23 - man/GRtime.Rd | 11 man/epoch.Rd | 6 man/get.intervals.Rd | 2 man/plot.stft.Rd | 23 - man/recalibrate.Rd | 13 man/seq.log.Rd | 3 man/stftcalc.Rd | 17 18 files changed, 812 insertions(+), 700 deletions(-)
Title: Big Data Preprocessing Architecture
Description: Provide a tool to easily build customized data flows to pre-process large volumes
of information from different sources. To this end, 'bdpar' allows to (i) easily use and
create new functionalities and (ii) develop new data source extractors according to the
user needs. Additionally, the package provides by default a predefined data flow
to extract and pre-process the most relevant information (tokens, dates, ... ) from some textual
sources (SMS, Email, tweets, YouTube comments).
Author: Miguel Ferreiro-Díaz [aut, cre],
David Ruano-Ordás [aut, ctr],
Tomás R. Cotos-Yañez [aut, ctr],
University of Vigo [cph]
Maintainer: Miguel Ferreiro-Díaz <miguel.ferreiro.diaz@gmail.com>
Diff between bdpar versions 2.0.0 dated 2020-02-20 and 3.0.0 dated 2020-11-25
DESCRIPTION | 31 MD5 | 360 +- NAMESPACE | 12 NEWS.md | 19 R/AbbreviationPipe.R | 428 +-- R/Bdpar.R | 447 +++ R/BdparOptions.R | 274 ++ R/Connections.R | 269 -- R/ContractionPipe.R | 435 +-- R/DefaultPipeline.R | 127 - R/DynamicPipeline.R | 307 +- R/ExtractorEml.R | 240 - R/ExtractorFactory.R | 312 +- R/ExtractorSms.R | 111 R/ExtractorTwtid.R | 270 +- R/ExtractorYtbid.R | 291 +- R/File2Pipe.R | 127 - R/FindEmojiPipe.R | 271 -- R/FindEmoticonPipe.R | 258 -- R/FindHashtagPipe.R | 257 -- R/FindUrlPipe.R | 457 +-- R/FindUserNamePipe.R | 259 -- R/GenericPipe.R | 335 +- R/GenericPipeline.R | 93 R/GuessDatePipe.R | 111 R/GuessLanguagePipe.R | 218 - R/Instance.R | 709 +---- R/InterjectionPipe.R | 411 +-- R/MeasureLengthPipe.R | 200 - R/ResourceHandler.R | 147 - R/SlangPipe.R | 427 +-- R/StopWordPipe.R | 424 +-- R/StoreFileExtPipe.R | 163 - R/TargetAssigningPipe.R | 279 -- R/TeeCSVPipe.R | 192 - R/ToLowerCasePipe.R | 150 - R/bdpar.Options.R | 111 R/bdpar.log.R |only R/eml.R | 16 R/operator-pipe.R | 252 +- R/runPipeline.R | 93 R/wrapper.R |only R/zzz.R | 2 build/vignette.rds |binary exec/parse.py | 6 inst/doc/bdpar.R | 29 inst/doc/bdpar.Rmd | 105 inst/doc/bdpar.html | 473 ++- inst/doc/bdparExample.R | 5 inst/doc/bdparExample.Rmd | 11 inst/doc/bdparExample.html | 120 inst/doc/bdparExampleImage.R |only inst/doc/bdparExampleImage.Rmd |only inst/doc/bdparExampleImage.html |only inst/example/testFilesEml/_ham_/00001.1a31cc283af0060967a233d26548a6ce.eml | 3 inst/example/testFilesEml/_ham_/00001.7c53336b37003a9286aba55d2945844c.eml | 3 inst/example/testFilesEml/_ham_/00002.9c4069e25e1ef370c078db7ee85ff9ac.eml | 5 inst/example/testFilesEml/_ham_/00002.ca96f74042d05c1a1d29ca30467cfcd5.eml | 4 inst/example/testFilesEml/_ham_/00003.268fd170a3fc73bee2739d8204856a53.eml | 2 inst/example/testFilesEml/_ham_/00003.860e3c3cee1b42ead714c5c874fe25f7.eml | 5 inst/example/testFilesEml/_ham_/00004.864220c5b6930b209cc287c361c99af1.eml | 2 inst/example/testFilesEml/_ham_/00005.34bcaad58ad5f598f5d6af8cfa0c0465.eml | 7 inst/example/testFilesEml/_ham_/00005.bf27cdeaf0b8c4647ecd61b1d09da613.eml | 5 inst/example/testFilesEml/_ham_/00006.253ea2f9a9cc36fa0b1129b04b806608.eml | 5 inst/example/testFilesEml/_ham_/00008.5891548d921601906337dcf1ed8543cb.eml | 5 inst/example/testFilesEml/_ham_/01391.00e6f3a6dc816f22335f1b0fd6098eda.eml | 4 inst/example/testFilesEml/_ham_/01392.6a9e94b131381aa631022fc1b6c9bdab.eml | 4 inst/example/testFilesEml/_ham_/01394.b4dd1cece01b908f040e33493643c4a4.eml | 5 inst/example/testFilesEml/_ham_/01395.65a2be0a7f93369c253c4bac543fdeb8.eml | 4 inst/example/testFilesEml/_ham_/01399.ca6b00b7b341bbde9a9ea3dd6a7bf896.eml | 4 inst/example/testFilesEml/_ham_/01400.f897f0931e461e7b2e964d28e927c35e.eml | 3 inst/example/testFilesTsms/_ham_/0.tsms | 2 inst/example/testFilesTsms/_ham_/10.tsms | 2 inst/example/testFilesTsms/_ham_/14.tsms | 2 inst/example/testFilesTsms/_ham_/16.tsms | 2 inst/example/testFilesTsms/_ham_/20.tsms | 2 inst/example/testFilesTsms/_ham_/23.tsms | 2 inst/example/testFilesTsms/_ham_/27.tsms | 2 inst/example/testFilesTsms/_ham_/4.tsms | 2 man/AbbreviationPipe.Rd | 318 +- man/Bdpar.Rd | 157 - man/Connections.Rd | 167 - man/ContractionPipe.Rd | 318 +- man/DefaultPipeline.Rd | 133 - man/DynamicPipeline.Rd | 226 + man/ExtractorEml.Rd | 241 + man/ExtractorFactory.Rd | 249 +- man/ExtractorSms.Rd | 141 - man/ExtractorTwtid.Rd | 229 + man/ExtractorYtbid.Rd | 226 + man/File2Pipe.Rd | 148 - man/FindEmojiPipe.Rd | 230 + man/FindEmoticonPipe.Rd | 227 + man/FindHashtagPipe.Rd | 227 + man/FindUrlPipe.Rd | 362 +- man/FindUserNamePipe.Rd | 229 + man/GenericPipe.Rd | 268 +- man/GenericPipeline.Rd | 112 man/GuessDatePipe.Rd | 151 - man/GuessLanguagePipe.Rd | 184 - man/Instance.Rd | 571 ++-- man/InterjectionPipe.Rd | 304 +- man/MeasureLengthPipe.Rd | 185 - man/ResourceHandler.Rd | 140 - man/SlangPipe.Rd | 310 +- man/StopWordPipe.Rd | 304 +- man/StoreFileExtPipe.Rd | 169 - man/TargetAssigningPipe.Rd | 246 + man/TeeCSVPipe.Rd | 177 - man/ToLowerCasePipe.Rd | 166 - man/bdpar.Options.Rd | 116 man/bdpar.log.Rd |only man/bdparData.Rd | 6 man/operator-pipe.Rd | 16 man/runPipeline.Rd | 31 tests/testthat/testFiles/testAbbreviationPipe/testFile.tsms | 2 tests/testthat/testFiles/testBdpar/tsms-1fileInvalid |only tests/testthat/testFiles/testBdpar/tsms/_ham_/30.tsms | 2 tests/testthat/testFiles/testBdpar/tsms/_spam_/1022.tsms | 2 tests/testthat/testFiles/testBdpar/tsms5Files |only tests/testthat/testFiles/testBdparOptions |only tests/testthat/testFiles/testContractionPipe/testFile.tsms | 2 tests/testthat/testFiles/testDefaultPipeline/files/_ham_/testFile.tsms | 2 tests/testthat/testFiles/testDefaultPipeline/testFile.tsms | 2 tests/testthat/testFiles/testDynamicPipeline/files/_ham_/testFile.tsms | 2 tests/testthat/testFiles/testDynamicPipeline/testFile.tsms | 2 tests/testthat/testFiles/testFindEmojiPipe/testFile.tsms | 2 tests/testthat/testFiles/testFindEmoticonPipe/testFile.tsms | 2 tests/testthat/testFiles/testFindHashtagPipe/testFile.tsms | 2 tests/testthat/testFiles/testFindUrlPipe/testFile.tsms | 2 tests/testthat/testFiles/testFindUserNamePipe/testFile.tsms | 2 tests/testthat/testFiles/testGuessDatePipe/testFile.tsms | 2 tests/testthat/testFiles/testGuessLanguagePipe/testFile.tsms | 2 tests/testthat/testFiles/testInstanceFactory/example.twtid | 2 tests/testthat/testFiles/testInstanceFactory/example.ytbid | 2 tests/testthat/testFiles/testInterjectionPipe/testFile.tsms | 2 tests/testthat/testFiles/testMeasureLengthPipe/testFile.tsms | 2 tests/testthat/testFiles/testOperator-pipe |only tests/testthat/testFiles/testRunPipeline/tsms/_ham_/30.tsms | 2 tests/testthat/testFiles/testRunPipeline/tsms/_spam_/1022.tsms | 2 tests/testthat/testFiles/testSlangPipe/testFile.tsms | 2 tests/testthat/testFiles/testStopWordPipe/testFile.tsms | 2 tests/testthat/testFiles/testStoreFileExtPipe/testFile.tsms | 2 tests/testthat/testFiles/testTargetAssigningPipe/files/_ham_/testFile.tsms | 2 tests/testthat/testFiles/testTargetAssigningPipe/testFile.tsms | 2 tests/testthat/testFiles/testTeeCSVPipe/testFile.tsms | 2 tests/testthat/test_AbbreviationPipe.R | 308 +- tests/testthat/test_Bdpar.R | 1242 +++++++++- tests/testthat/test_BdparOptions.R | 282 ++ tests/testthat/test_Connections.R | 77 tests/testthat/test_ContractionPipe.R | 311 +- tests/testthat/test_DefaultPipeline.R | 95 tests/testthat/test_DynamicPipeline.R | 212 + tests/testthat/test_ExtractorEml.R | 120 tests/testthat/test_ExtractorFactory.R | 293 ++ tests/testthat/test_ExtractorSms.R | 88 tests/testthat/test_ExtractorTwtid.R | 12 tests/testthat/test_ExtractorYtbid.R | 12 tests/testthat/test_File2Pipe.R | 83 tests/testthat/test_FindEmojiPipe.R | 185 + tests/testthat/test_FindEmoticonPipe.R | 159 + tests/testthat/test_FindHashtagPipe.R | 159 + tests/testthat/test_FindUrlPipe.R | 305 ++ tests/testthat/test_FindUserNamePipe.R | 159 + tests/testthat/test_GenericPipeline.R | 53 tests/testthat/test_GuessDatePipe.R | 69 tests/testthat/test_GuessLanguagePipe.R | 118 tests/testthat/test_Instance.R | 455 +++ tests/testthat/test_InterjectionPipe.R | 327 +- tests/testthat/test_MeasureLengthPipe.R | 115 tests/testthat/test_Operator-pipe.R |only tests/testthat/test_PipeGeneric.R | 152 + tests/testthat/test_ResourceHandler.R | 82 tests/testthat/test_SlangPipe.R | 345 +- tests/testthat/test_StopWordPipe.R | 330 +- tests/testthat/test_StoreFileExtPipe.R | 103 tests/testthat/test_TargetAssigningPipe.R | 180 + tests/testthat/test_TeeCSVPipe.R | 163 + tests/testthat/test_ToLowerCasePipe.R | 89 tests/testthat/test_bdpar.log.R |only tests/testthat/test_onLoad.R |only tests/testthat/test_runPipeline.R | 265 +- vignettes/bdpar.Rmd | 105 vignettes/bdparExample.Rmd | 11 vignettes/bdparExampleImage.Rmd |only 185 files changed, 15864 insertions(+), 9268 deletions(-)
Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create
and manage project-local R libraries, save the state of these libraries to
a 'lockfile', and later restore your library as required. Together, these
tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre],
RStudio [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between renv versions 0.12.2 dated 2020-11-04 and 0.12.3 dated 2020-11-25
DESCRIPTION | 11 - MD5 | 98 ++++++------ NEWS.md | 39 +++++ R/bioconductor.R | 6 R/bootstrap.R | 59 ++++++- R/cache.R | 80 +++++++++- R/dependencies.R | 7 R/files.R | 2 R/hash.R | 4 R/install.R | 13 - R/libpaths.R | 38 +++- R/load.R | 8 - R/lockfile.R | 8 - R/packages.R | 9 + R/patch.R | 44 +++++ R/project.R | 30 +++ R/restore.R | 20 +- R/retrieve.R | 2 R/roxygen.R | 10 - R/settings.R | 17 ++ R/snapshot.R | 2 R/status.R | 18 +- R/testthat-reporter.R | 5 build/vignette.rds |binary inst/doc/ci.html | 237 ------------------------------ inst/doc/collaborating.html | 237 ------------------------------ inst/doc/docker.Rmd | 28 +++ inst/doc/docker.html | 261 +++------------------------------- inst/doc/faq.html | 247 +------------------------------- inst/doc/local-sources.html | 239 ------------------------------- inst/doc/lockfile.html | 239 ------------------------------- inst/doc/mran.html | 247 +------------------------------- inst/doc/packages.html | 237 ------------------------------ inst/doc/python.html | 237 ------------------------------ inst/doc/renv.Rmd | 9 - inst/doc/renv.html | 283 +++---------------------------------- inst/resources/activate.R | 70 +++++++-- man/install.Rd | 2 man/restore.Rd | 6 man/settings.Rd | 12 + man/status.Rd | 7 man/update.Rd | 2 tests/testthat/test-bioconductor.R | 16 ++ tests/testthat/test-bootstrap.R | 13 + tests/testthat/test-cache.R | 28 +++ tests/testthat/test-dependencies.R | 21 +- tests/testthat/test-install.R | 10 + tests/testthat/test-settings.R | 11 + vignettes/docker.Rmd | 28 +++ vignettes/renv.Rmd | 9 - 50 files changed, 741 insertions(+), 2525 deletions(-)
Title: CONCOR and Supplemental Functions
Description: Contains the CONCOR (CONvergence of iterated CORrelations)
algorithm and a series of supplemental functions for easy running,
plotting, and blockmodeling. The CONCOR algorithm is used on social network
data to identify network positions based off a definition of structural
equivalence; see Breiger, Boorman, and Arabie (1975)
<doi:10.1016/0022-2496(75)90028-0> and Wasserman and Faust's book Social
Network Analysis: Methods and Applications (1994). This version allows
multiple relationships for the same set of nodes and uses both incoming and
outgoing ties to find positions.
Author: Tyme Suda [aut],
Adrienne Traxler [cre] (<https://orcid.org/0000-0003-2725-0686>),
Carter Butts [ctb] (Author of sna::plot.blockmodel(), adapted for
plot_blk())
Maintainer: Adrienne Traxler <adrienne.traxler@wright.edu>
Diff between concorR versions 0.2.0 dated 2020-06-03 and 0.2.1 dated 2020-11-25
DESCRIPTION | 6 ++-- MD5 | 26 +++++++++--------- NAMESPACE | 26 +++++++++--------- NEWS.md |only R/CONCOR_supplemental_fun.R | 30 ++++++++++++++++++--- README.md | 13 ++++++--- build/partial.rdb |binary inst |only man/concorigraphapply.Rd | 11 +++++++ man/concormakeigraph.Rd | 19 +++++++++---- man/figures/README-example-basic-1.png |binary man/figures/README-example-basic-2.png |binary man/figures/README-krackhardt-reduced-multi-1.png |binary man/figures/README-krackhardt-reduced-single-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary 15 files changed, 89 insertions(+), 42 deletions(-)
Title: Quick Serialization of R Objects
Description: Provides functions for quickly writing and reading any R object to and from disk.
Author: Travers Ching [aut, cre, cph],
Yann Collet [ctb, cph] (Yann Collet is the author of the bundled zstd,
lz4 and xxHash code),
Facebook, Inc. [cph] (Facebook is the copyright holder of the bundled
zstd code),
Reichardt Tino [ctb, cph] (Contributor/copyright holder of zstd bundled
code),
Skibinski Przemyslaw [ctb, cph] (Contributor/copyright holder of zstd
bundled code),
Mori Yuta [ctb, cph] (Contributor/copyright holder of zstd bundled
code),
Romain Francois [ctb, cph] (Derived example/tutorials for ALTREP
structures),
Francesc Alted [ctb, cph] (Shuffling routines derived from Blosc
library),
Bryce Chamberlain [ctb] (qsame, qload function contributor)
Maintainer: Travers Ching <traversc@gmail.com>
Diff between qs versions 0.23.3 dated 2020-10-05 and 0.23.4 dated 2020-11-25
ChangeLog | 3 +++ DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/qsavem-load.R | 8 ++++---- R/zzz.R | 2 +- build/vignette.rds |binary inst/doc/vignette.html | 2 +- man/qreadm.Rd | 4 ++-- man/qsavem.Rd | 4 ++-- 9 files changed, 25 insertions(+), 22 deletions(-)
Title: False Discovery Exceedance Controlling Multiple Testing
Procedures
Description: Multiple testing procedures for heterogeneous and discrete tests as described in Döhler and Roquain (2019) <arXiv:1912.04607v1>. The main algorithms of the paper are available as continuous, discrete and weighted versions.
Author: Sebastian Döhler [aut],
Florian Junge [aut, cre],
Etienne Roquain [ctb]
Maintainer: Florian Junge <florian.junge@h-da.de>
Diff between FDX versions 1.0.2 dated 2020-09-02 and 1.0.3 dated 2020-11-25
DESCRIPTION | 11 ++++++----- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/weightedGR_fun.R | 2 +- R/weightedLR_fun.R | 2 +- R/weightedPB_fun.R | 2 +- 6 files changed, 18 insertions(+), 13 deletions(-)
Title: Symbolic Representation of Matrix Determinant
Description: Creates a guide for writing the formula for the determinant of a square matrix (a detguide) as a function of the elements of the matrix and writes out that formula, the symbolic representation.
Author: William Fairweather [aut, cre]
Maintainer: William Fairweather <wrf343@flowervalleyconsulting.com>
Diff between SymbolicDeterminants versions 1.0.2 dated 2020-11-09 and 1.2.0 dated 2020-11-25
SymbolicDeterminants-1.0.2/SymbolicDeterminants/R/initialdets.R |only SymbolicDeterminants-1.0.2/SymbolicDeterminants/R/makedetguide.R |only SymbolicDeterminants-1.0.2/SymbolicDeterminants/R/size.predictor.R |only SymbolicDeterminants-1.0.2/SymbolicDeterminants/R/test.in.order.R |only SymbolicDeterminants-1.0.2/SymbolicDeterminants/inst/doc/background.Rmd |only SymbolicDeterminants-1.0.2/SymbolicDeterminants/inst/doc/background.html |only SymbolicDeterminants-1.0.2/SymbolicDeterminants/man/initialdets.Rd |only SymbolicDeterminants-1.0.2/SymbolicDeterminants/vignettes/background.Rmd |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/DESCRIPTION | 18 ++--- SymbolicDeterminants-1.2.0/SymbolicDeterminants/LICENSE |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/MD5 | 35 +++++----- SymbolicDeterminants-1.2.0/SymbolicDeterminants/NAMESPACE | 5 + SymbolicDeterminants-1.2.0/SymbolicDeterminants/NEWS.md | 16 ++++ SymbolicDeterminants-1.2.0/SymbolicDeterminants/R/anewdetguide.R |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/R/confirm.det.R | 19 ++--- SymbolicDeterminants-1.2.0/SymbolicDeterminants/R/detindex.R |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/R/parsedetguide.R | 25 +++---- SymbolicDeterminants-1.2.0/SymbolicDeterminants/R/predictor.R |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/R/retrieve.R |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/README.md |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/build/vignette.rds |binary SymbolicDeterminants-1.2.0/SymbolicDeterminants/inst/doc/Background.Rmd |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/inst/doc/Background.html |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/man/anewdetguide.Rd |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/man/confirm.det.Rd | 11 +-- SymbolicDeterminants-1.2.0/SymbolicDeterminants/man/detindex.Rd |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/man/predictor.Rd |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/man/retrieve.Rd |only SymbolicDeterminants-1.2.0/SymbolicDeterminants/vignettes/Background.Rmd |only 29 files changed, 73 insertions(+), 56 deletions(-)
More information about SymbolicDeterminants at CRAN
Permanent link
Title: PARAFAC Analysis of EEMs from DOM
Description: This is a user-friendly way to run a parallel factor (PARAFAC) analysis (Harshman, 1971) <doi:10.1121/1.1977523> on excitation emission matrix (EEM) data from dissolved organic matter (DOM) samples (Murphy et al., 2013) <doi:10.1039/c3ay41160e>. The analysis includes profound methods for model validation. Some additional functions allow the calculation of absorbance slope parameters and create beautiful plots.
Author: Matthias Pucher [aut, cre],
Daniel Graeber [aut, ctb],
Stefan Preiner [ctb],
Renata Pinto [ctb]
Maintainer: Matthias Pucher <matthias.pucher@wcl.ac.at>
Diff between staRdom versions 1.1.14 dated 2020-07-28 and 1.1.18 dated 2020-11-25
DESCRIPTION | 22 - MD5 | 62 ++-- R/absorption_functions.R | 13 R/correction_functions.R | 14 - R/eem_importers.R | 14 - R/parafac_functions.R | 45 +-- R/parafac_plot_functions.R | 13 README | 16 + build/vignette.rds |binary inst/doc/Basic_analysis_of_DOM_samples.Rmd | 8 inst/doc/Basic_analysis_of_DOM_samples.html | 60 ++++ inst/doc/PARAFAC_analysis_of_EEM.Rmd | 2 inst/doc/PARAFAC_analysis_of_EEM.html | 371 ++++++++++++++++------------ man/abs_blcor.Rd | 3 man/abs_parms.Rd | 6 man/eem_csv2.Rd | 6 man/eem_extend2largest.Rd | 2 man/eem_hitachi.Rd | 6 man/eem_interp.Rd | 12 man/eem_parafac.Rd | 3 man/eempf4analysis.Rd | 5 man/eempf_eemqual.Rd | 8 man/eempf_reorder.Rd | 2 man/eempf_report.Rd | 9 man/eempf_residuals.Rd | 2 man/eempf_residuals_plot.Rd | 2 man/eempf_varimp.Rd | 2 man/parafac_conv.Rd | 3 man/splithalf.Rd | 2 man/tcc_find_pairs.Rd | 2 vignettes/Basic_analysis_of_DOM_samples.Rmd | 8 vignettes/PARAFAC_analysis_of_EEM.Rmd | 2 32 files changed, 434 insertions(+), 291 deletions(-)
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More information about DatastreamDSWS2R at CRAN
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Title: Stratified and Personalised Models Based on Model-Based Trees
and Forests
Description: Model-based trees for subgroup analyses in clinical trials and
model-based forests for the estimation and prediction of personalised
treatment effects (personalised models). Currently partitioning of linear
models, lm(), generalised linear models, glm(), and Weibull models,
survreg(), is supported. Advanced plotting functionality is supported for
the trees and a test for parameter heterogeneity is provided for the
personalised models. For details on model-based trees for subgroup analyses
see Seibold, Zeileis and Hothorn (2016) <doi:10.1515/ijb-2015-0032>; for
details on model-based forests for estimation of individual treatment effects
see Seibold, Zeileis and Hothorn (2017) <doi:10.1177/0962280217693034>.
Author: Heidi Seibold [aut, cre],
Achim Zeileis [aut],
Torsten Hothorn [aut]
Maintainer: Heidi Seibold <heidi@seibold.co>
Diff between model4you versions 0.9-5 dated 2020-02-19 and 0.9-6 dated 2020-11-25
DESCRIPTION | 10 ++-- MD5 | 42 ++++++++++---------- R/helpers.R | 11 +++-- R/plot-pmtree.R | 14 ++++-- R/pmodel.R | 6 ++ R/pmtree-methods.R | 3 - inst/NEWS.Rd | 12 +++++ man/binomial_glm_plot.Rd | 9 +++- man/lm_plot.Rd | 9 +++- man/logLik.pmtree.Rd | 3 - man/node_pmterminal.Rd | 12 ++++- man/objfun.Rd | 3 - man/objfun.pmtree.Rd | 3 - man/pmforest.Rd | 24 +++++++---- man/pmodel.Rd | 12 ++++- man/pmtree.Rd | 10 +++- man/predict.pmtree.Rd | 10 +++- man/print.pmtree.Rd | 10 +++- man/survreg_plot.Rd | 3 - man/varimp.pmforest.Rd | 10 +++- tests/test-pmtree.R | 14 +++--- tests/test-pmtree.Rout.save | 90 ++++++-------------------------------------- 22 files changed, 166 insertions(+), 154 deletions(-)
Title: Tools for Easier Analysis of Meteorological Fields
Description: Many useful functions and extensions for dealing
with meteorological data in the tidy data framework. Extends 'ggplot2'
for better plotting of scalar and vector fields and provides commonly
used analysis methods in the atmospheric sciences.
Author: Elio Campitelli [cre, aut] (<https://orcid.org/0000-0002-7742-9230>)
Maintainer: Elio Campitelli <elio.campitelli@cima.fcen.uba.ar>
Diff between metR versions 0.8.0 dated 2020-10-25 and 0.9.0 dated 2020-11-25
metR-0.8.0/metR/tests/testthat/test-guide_colorstrip.R |only metR-0.8.0/metR/tests/testthat/test-guide_vector.R |only metR-0.9.0/metR/DESCRIPTION | 6 metR-0.9.0/metR/MD5 | 106 +- metR-0.9.0/metR/NAMESPACE | 7 metR-0.9.0/metR/NEWS.md | 40 metR-0.9.0/metR/R/DivideTimeseries.R | 2 metR-0.9.0/metR/R/MakeBreaks.R | 17 metR-0.9.0/metR/R/Tajectory.R | 8 metR-0.9.0/metR/R/geom_arrow.R | 19 metR-0.9.0/metR/R/geom_contour_fill.R | 11 metR-0.9.0/metR/R/geom_contour_tanaka.R | 69 + metR-0.9.0/metR/R/geom_label_contour.R | 84 + metR-0.9.0/metR/R/geom_streamline.R | 2 metR-0.9.0/metR/R/geom_text_contour.R | 1 metR-0.9.0/metR/R/label-placement.R | 17 metR-0.9.0/metR/R/scale-unbinned.R |only metR-0.9.0/metR/R/stat_contour2.r | 5 metR-0.9.0/metR/R/stat_contour_fill.R | 233 ---- metR-0.9.0/metR/R/textContourGrob.R | 86 + metR-0.9.0/metR/README.md | 41 metR-0.9.0/metR/inst/doc/Visualization-tools.R | 110 +- metR-0.9.0/metR/inst/doc/Visualization-tools.Rmd | 198 ++-- metR-0.9.0/metR/inst/doc/Visualization-tools.html | 495 ++++------ metR-0.9.0/metR/inst/doc/Working-with-data.html | 108 -- metR-0.9.0/metR/man/MakeBreaks.Rd | 2 metR-0.9.0/metR/man/contour_placement.Rd | 5 metR-0.9.0/metR/man/discretised_scale.Rd |only metR-0.9.0/metR/man/figures/field-1.png |binary metR-0.9.0/metR/man/geom_contour_fill.Rd | 11 metR-0.9.0/metR/man/geom_contour_tanaka.Rd | 11 metR-0.9.0/metR/man/geom_text_contour.Rd | 7 metR-0.9.0/metR/tests/figs/contour-fill/contour-fill-level-d.svg |only metR-0.9.0/metR/tests/figs/contour-fill/contour-fill-level.svg |only metR-0.9.0/metR/tests/figs/discretised-scale |only metR-0.9.0/metR/tests/figs/guide-colourstrip |only metR-0.9.0/metR/tests/figs/guide-vector-and-scale-mag |only metR-0.9.0/metR/tests/figs/stat-contour2/contour2-global-breaks-full.svg | 10 metR-0.9.0/metR/tests/figs/text-contour |only metR-0.9.0/metR/tests/testthat/Rplots.pdf |binary metR-0.9.0/metR/tests/testthat/test-GetTopography.R | 4 metR-0.9.0/metR/tests/testthat/test-interpolate.R |only metR-0.9.0/metR/tests/testthat/test-trajectory.R |only metR-0.9.0/metR/tests/testthat/test-vis-arrow.R | 1 metR-0.9.0/metR/tests/testthat/test-vis-contour2.R | 2 metR-0.9.0/metR/tests/testthat/test-vis-contour_fill.R | 16 metR-0.9.0/metR/tests/testthat/test-vis-discretised-scale.R |only metR-0.9.0/metR/tests/testthat/test-vis-guide_colorstrip.R |only metR-0.9.0/metR/tests/testthat/test-vis-guide_vector.R |only metR-0.9.0/metR/tests/testthat/test-vis-streamline.R | 16 metR-0.9.0/metR/tests/testthat/test-vis-text-contour.R |only metR-0.9.0/metR/vignettes/Visualization-tools.Rmd | 198 ++-- 52 files changed, 1033 insertions(+), 915 deletions(-)
Title: Diffusion Model of Conflict (DMC) in Reaction Time Tasks
Description: DMC model simulation detailed in Ulrich, R., Schroeter, H., Leuthold, H., & Birngruber, T. (2015).
Automatic and controlled stimulus processing in conflict tasks: Superimposed diffusion processes and delta functions.
Cognitive Psychology, 78, 148-174. Ulrich et al. (2015) <doi:10.1016/j.cogpsych.2015.02.005>.
Decision processes within choice reaction-time (CRT) tasks are often modelled using evidence accumulation models (EAMs),
a variation of which is the Diffusion Decision Model (DDM, for a review, see Ratcliff & McKoon, 2008).
Ulrich et al. (2015) introduced a Diffusion Model for Conflict tasks (DMC). The DMC model combines common
features from within standard diffusion models with the addition of superimposed controlled and automatic activation.
The DMC model is used to explain distributional reaction time (and error rate) patterns in common behavioural
conflict-like tasks (e.g., Flanker task, Simon task). This R-package implements the DMC model and provides functionality
to fit the model to observed data.
Author: Mackenzie G. Ian [cre, aut]
Maintainer: Mackenzie G. Ian <ian.mackenzie@uni-tuebingen.de>
Diff between DMCfun versions 0.15.0 dated 2020-09-20 and 1.1.0 dated 2020-11-25
DMCfun-0.15.0/DMCfun/man/dmcFitAgg.Rd |only DMCfun-0.15.0/DMCfun/man/dmcFitVPs.Rd |only DMCfun-0.15.0/DMCfun/man/mean.dmcfitvp.Rd |only DMCfun-0.15.0/DMCfun/man/plot.dmcfitvp.Rd |only DMCfun-0.15.0/DMCfun/man/summary.dmcfitvp.Rd |only DMCfun-0.15.0/DMCfun/tests/testthat/test-dmcFitAgg.R |only DMCfun-0.15.0/DMCfun/tests/testthat/test-dmcFitVPs.R |only DMCfun-1.1.0/DMCfun/DESCRIPTION | 26 DMCfun-1.1.0/DMCfun/MD5 | 114 +- DMCfun-1.1.0/DMCfun/NAMESPACE | 5 DMCfun-1.1.0/DMCfun/R/DMCfun.R | 4 DMCfun-1.1.0/DMCfun/R/dmcData.R | 250 ++-- DMCfun-1.1.0/DMCfun/R/dmcFit.R | 567 +++++++--- DMCfun-1.1.0/DMCfun/R/dmcSim.R | 20 DMCfun-1.1.0/DMCfun/R/plot.R | 772 +++++++++----- DMCfun-1.1.0/DMCfun/R/summary.R | 60 - DMCfun-1.1.0/DMCfun/R/zzz.R | 15 DMCfun-1.1.0/DMCfun/README.md | 41 DMCfun-1.1.0/DMCfun/data/flankerData.rda |binary DMCfun-1.1.0/DMCfun/data/flankerData.txt | 2 DMCfun-1.1.0/DMCfun/data/flankerDataRaw.rda |binary DMCfun-1.1.0/DMCfun/data/simonData.rda |binary DMCfun-1.1.0/DMCfun/data/simonData.txt | 2 DMCfun-1.1.0/DMCfun/data/simonDataRaw.rda |binary DMCfun-1.1.0/DMCfun/man/DMCfun-package.Rd | 22 DMCfun-1.1.0/DMCfun/man/addDataDF.Rd | 11 DMCfun-1.1.0/DMCfun/man/addErrorBars.Rd | 2 DMCfun-1.1.0/DMCfun/man/calculateCAF.Rd | 15 DMCfun-1.1.0/DMCfun/man/calculateCostValue.Rd | 2 DMCfun-1.1.0/DMCfun/man/calculateDelta.Rd | 13 DMCfun-1.1.0/DMCfun/man/createDF.Rd | 12 DMCfun-1.1.0/DMCfun/man/dmcCombineObservedData.Rd |only DMCfun-1.1.0/DMCfun/man/dmcFit.Rd |only DMCfun-1.1.0/DMCfun/man/dmcFitDE.Rd |only DMCfun-1.1.0/DMCfun/man/dmcFitSubject.Rd |only DMCfun-1.1.0/DMCfun/man/dmcFitSubjectDE.Rd |only DMCfun-1.1.0/DMCfun/man/dmcObservedData.Rd | 33 DMCfun-1.1.0/DMCfun/man/dmcSim.Rd | 6 DMCfun-1.1.0/DMCfun/man/dmcSims.Rd | 2 DMCfun-1.1.0/DMCfun/man/errDist.Rd | 2 DMCfun-1.1.0/DMCfun/man/flankerData.Rd | 3 DMCfun-1.1.0/DMCfun/man/flankerDataRaw.Rd | 2 DMCfun-1.1.0/DMCfun/man/mean.dmcfit.Rd |only DMCfun-1.1.0/DMCfun/man/plot.dmcfit.Rd | 15 DMCfun-1.1.0/DMCfun/man/plot.dmclist.Rd | 13 DMCfun-1.1.0/DMCfun/man/plot.dmcob.Rd | 23 DMCfun-1.1.0/DMCfun/man/plot.dmcobs.Rd |only DMCfun-1.1.0/DMCfun/man/plot.dmcsim.Rd | 6 DMCfun-1.1.0/DMCfun/man/rtDist.Rd | 2 DMCfun-1.1.0/DMCfun/man/simonDataRaw.Rd | 2 DMCfun-1.1.0/DMCfun/man/summary.dmcfit.Rd | 4 DMCfun-1.1.0/DMCfun/man/summary.dmcsim.Rd | 3 DMCfun-1.1.0/DMCfun/src/dmcCppR.cpp | 2 DMCfun-1.1.0/DMCfun/src/inDMC.cpp | 2 DMCfun-1.1.0/DMCfun/src/inDMC.h | 2 DMCfun-1.1.0/DMCfun/src/runDMC.cpp | 22 DMCfun-1.1.0/DMCfun/src/runDMC.h | 4 DMCfun-1.1.0/DMCfun/tests/testthat/test-addDataDF.R | 34 DMCfun-1.1.0/DMCfun/tests/testthat/test-calculateCAF.R | 16 DMCfun-1.1.0/DMCfun/tests/testthat/test-createDF.R | 14 DMCfun-1.1.0/DMCfun/tests/testthat/test-dmcFit.R |only DMCfun-1.1.0/DMCfun/tests/testthat/test-dmcFitSubject.R |only DMCfun-1.1.0/DMCfun/tests/testthat/test-dmcObservedData.R | 4 DMCfun-1.1.0/DMCfun/tests/testthat/test-dmcSim.R | 66 - DMCfun-1.1.0/DMCfun/tests/testthat/test-plot.dmcfit.R | 30 DMCfun-1.1.0/DMCfun/tests/testthat/test-plot.dmcob.R | 10 66 files changed, 1410 insertions(+), 867 deletions(-)
Title: 'Lua'-Filters for R Markdown
Description: A collection of 'Lua' filters that extend the functionality
of R Markdown templates (e.g., count words or post-process citations).
Author: Frederik Aust [aut, cre] (<https://orcid.org/0000-0003-4900-788X>),
Marius Barth [ctb]
Maintainer: Frederik Aust <frederik.aust@uni-koeln.de>
Diff between rmdfiltr versions 0.1.2 dated 2019-12-11 and 0.1.3 dated 2020-11-25
DESCRIPTION | 17 - LICENSE | 2 MD5 | 30 +-- NEWS.md | 6 R/add_lua_filter.R | 8 README.md | 2 build/vignette.rds |binary inst/WORDLIST | 7 inst/doc/replace_ampersands.Rmd | 12 - inst/doc/replace_ampersands.html | 259 ++++---------------------- inst/doc/wordcount.Rmd | 16 - inst/doc/wordcount.html | 269 +++++----------------------- inst/replace_ampersands.lua | 35 +++ tests/testthat/test_convenience_functions.R | 10 - vignettes/replace_ampersands.Rmd | 12 - vignettes/wordcount.Rmd | 16 - 16 files changed, 204 insertions(+), 497 deletions(-)
Title: Create Reports Using R and 'asciidoc'
Description: Inspired by Karl Broman`s reader on using 'knitr'
with 'asciidoc'
(<http://kbroman.org/knitr_knutshell/pages/asciidoc.html>), this is
merely a wrapper to 'knitr' and 'asciidoc'.
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between rasciidoc versions 2.2.1 dated 2020-11-18 and 2.2.2 dated 2020-11-25
DESCRIPTION | 6 MD5 | 47 +- NEWS.md | 10 R/highr_internals.R | 39 +- R/internals.R | 43 +- R/knitr_internals.R | 27 - R/knitr_internals_mod.R | 67 +-- R/render.R | 64 ++- R/throw.R | 2 R/vignette_engine.R | 16 R/zzz.R | 10 README.md | 9 inst/doc/An_Introduction_to_rasciidoc.Rasciidoc | 2 inst/doc/An_Introduction_to_rasciidoc.html | 60 +-- inst/files/default.html |only inst/runit_tests/files/expected/no_source_highlight |only inst/runit_tests/files/simple.asciidoc |only inst/runit_tests/runit-extraction.R | 14 inst/runit_tests/runit-highr_internals.R | 2 inst/runit_tests/runit-knitr_internals_mod.R | 56 +-- inst/runit_tests/runit-render.R | 350 +++++++++++--------- man/rasciidoc.Rd | 13 man/render.Rd | 4 man/throw.Rd | 2 tests/runit.R | 12 vignettes/An_Introduction_to_rasciidoc.Rasciidoc | 2 26 files changed, 471 insertions(+), 386 deletions(-)
Title: Efficient Computation of Ordinary and Generalized Poisson
Binomial Distributions
Description: Efficient implementations of multiple exact and approximate methods as described in Hong (2013) <doi:10.1016/j.csda.2012.10.006>, Biscarri, Zhao & Brunner (2018) <doi:10.1016/j.csda.2018.01.007> and Zhang, Hong & Balakrishnan (2018) <doi:10.1080/00949655.2018.1440294> for computing the probability mass, cumulative distribution and quantile functions, as well as generating random numbers for both the ordinary and generalized Poisson binomial distribution.
Author: Florian Junge [aut, cre]
Maintainer: Florian Junge <florian.junge@h-da.de>
Diff between PoissonBinomial versions 1.1.3 dated 2020-09-07 and 1.2.0 dated 2020-11-25
DESCRIPTION | 9 MD5 | 56 +- NAMESPACE | 1 NEWS.md | 13 R/RcppExports.R | 12 R/gpbinom.R | 744 ++++++++++++++--------------- R/pbinom.R | 64 ++ R/utility.R | 183 +++---- build/vignette.rds |binary inst/doc/intro.R | 69 +- inst/doc/intro.Rmd | 447 ++++++++--------- inst/doc/intro.html | 244 +++++---- inst/doc/proc_approx.R | 6 inst/doc/proc_approx.Rmd | 14 inst/doc/proc_approx.html | 94 ++- inst/doc/proc_exact.R | 10 inst/doc/proc_exact.Rmd | 18 inst/doc/proc_exact.html | 114 +++- inst/doc/use_with_rcpp.Rmd | 160 ++++-- inst/doc/use_with_rcpp.html | 208 ++++++-- inst/include/PoissonBinomial_RcppExports.h | 159 ++++-- man/GenPoissonBinomial-Distribution.Rd | 26 - man/PoissonBinomial-Distribution.Rd | 19 src/PoissonBinomial.cpp | 727 +++++++++++++++++----------- src/RcppExports.cpp | 369 +++++++++----- vignettes/intro.Rmd | 447 ++++++++--------- vignettes/proc_approx.Rmd | 14 vignettes/proc_exact.Rmd | 18 vignettes/use_with_rcpp.Rmd | 160 ++++-- 29 files changed, 2629 insertions(+), 1776 deletions(-)
More information about PoissonBinomial at CRAN
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Title: Periodic Autoregressive Time Series Models
Description: Basic functions to fit and predict periodic autoregressive time series models. These models are discussed in the book P.H. Franses (1996) "Periodicity and Stochastic Trends in Economic Time Series", Oxford University Press. Data set analyzed in that book is also provided. NOTE: the package was orphaned during several years. It is now only maintained, but no major enhancements are expected, and the maintainer cannot provide any support.
Author: Javier Lopez-de-Lacalle [aut, cph],
Matthieu Stigler [cre] (<https://orcid.org/0000-0002-6802-4290>)
Maintainer: Matthieu Stigler <Matthieu.Stigler@gmail.com>
Diff between partsm versions 1.1-2 dated 2014-03-31 and 1.1-3 dated 2020-11-25
DESCRIPTION | 29 ++++-- MD5 | 116 ++++++++++++------------- NAMESPACE | 9 + R/bbplot.R | 6 - R/partsm.R | 8 - build/vignette.rds |binary data/canun.rda |binary data/canunsa.rda |binary data/gergnp.rda |binary data/gergnpsa.rda |binary data/swdipc.rda |binary data/swndcpc.rda |binary data/ukcons.rda |binary data/ukexp.rda |binary data/ukgdp.rda |binary data/ukimp.rda |binary data/ukinvest.rda |binary data/ukndcons.rda |binary data/ukpinvest.rda |binary data/ukwf.rda |binary data/usaipi.rda |binary data/usaipisa.rda |binary inst/ChangeLog | 4 inst/WORDLIST |only inst/doc/partsm.Rnw | 18 +-- inst/doc/partsm.pdf |binary inst/internal_tests_devtools.R |only man/Fnextp.test.Rd | 2 man/Fpar.test.Rd | 2 man/Fpari.piar.test.Rd | 5 - man/LRur.partsm-class.Rd | 2 man/LRurpar.test.Rd | 6 - man/MVPAR-class.Rd | 6 - man/MVPIAR-class.Rd | 6 - man/PAR.MVrepr-method.Rd | 2 man/canun.Rd | 2 man/canunsa.Rd | 2 man/fit.piar.Rd | 4 man/fit.piartsm-class.Rd | 2 man/gergnp.Rd | 2 man/gergnpsa.Rd | 2 man/plotpredpiar.Rd | 2 man/pred.piartsm-class.Rd | 2 man/predictpiar.Rd | 3 man/swdipc.Rd | 2 man/swndcpc.Rd | 2 man/ukcons.Rd | 2 man/ukexp.Rd | 2 man/ukgdp.Rd | 2 man/ukimp.Rd | 2 man/ukinvest.Rd | 2 man/ukndcons.Rd | 2 man/ukpinvest.Rd | 2 man/ukwf.Rd | 3 man/usaipi.Rd | 2 man/usaipisa.Rd | 2 tests/partsm_examples.R | 4 tests/partsm_examples.Rout.save | 182 ++++++++++++++++++++-------------------- vignettes/partsm.Rnw | 18 +-- vignettes/partsm.cls | 2 60 files changed, 247 insertions(+), 226 deletions(-)
Title: General Equilibrium Modeling
Description: Some tools for developing general equilibrium models and some general equilibrium models. These models can be used for teaching economic theory and are built by the methods of new structural economics (see <https://www.nse.pku.edu.cn/> and LI Wu, 2019, ISBN: 9787521804225, General Equilibrium and Structural Dynamics: Perspectives of New Structural Economics. Beijing: Economic Science Press). The model form and mathematical methods can be traced back to von Neumann, J. (1945, A Model of General Economic Equilibrium. The Review of Economic Studies, 13. pp. 1-9) and Kemeny, J. G., O. Morgenstern and G. L. Thompson (1956, A Generalization of the von Neumann Model of an Expanding Economy, Econometrica, 24, pp. 115-135) et al. By the way, J. G. Kemeny is a co-inventor of the computer language BASIC.
Author: LI Wu <liwu@staff.shu.edu.cn>
Maintainer: LI Wu <liwu@staff.shu.edu.cn>
Diff between GE versions 0.1.4 dated 2020-06-11 and 0.1.6 dated 2020-11-25
DESCRIPTION | 6 ++--- MD5 | 28 +++++++++++++------------ NAMESPACE | 1 R/CES.R | 8 +++++-- R/gemCanonicalDynamicMacroeconomic_3_2.R | 1 R/gemDualLinearProgramming.R | 14 ++++++------ R/gemQuasilinearPureExchange_2_2.R | 31 ++++++++++++++++++++++++++++ R/gemRobinson_3_2.R | 6 ++--- R/gemTwoCountryPureExchange_Bond.R |only R/sdm2.R | 6 +++-- man/gemCanonicalDynamicMacroeconomic_3_2.Rd | 3 ++ man/gemDualLinearProgramming.Rd | 14 ++++++------ man/gemQuasilinearPureExchange_2_2.Rd | 31 ++++++++++++++++++++++++++++ man/gemRobinson_3_2.Rd | 6 ++--- man/gemTwoCountryPureExchange_Bond.Rd |only man/sdm2.Rd | 2 - 16 files changed, 116 insertions(+), 41 deletions(-)
Title: Collect ESPN Fantasy Football Data
Description: Format the raw data from the ESPN fantasy football
API <https://fantasy.espn.com/apis/v3/games/ffl/> into tidy tables.
Scrape data on public leagues, rosters, athletes, and matches.
Author: Kiernan Nicholls [aut, cre]
Maintainer: Kiernan Nicholls <kiernann@protonmail.com>
Diff between fflr versions 0.3.12 dated 2020-11-06 and 0.3.13 dated 2020-11-25
DESCRIPTION | 8 MD5 | 44 - NEWS.md | 8 R/all-players.R | 8 R/live-scoring.R | 1 R/match-schedule.R | 2 R/match-scores.R | 2 R/player-outlook.R | 7 R/pro-schedule.R | 1 R/roster-moves.R | 1 R/week-scores.R | 2 README.md | 130 ++-- build/vignette.rds |binary inst/doc/fantasy-football.R | 12 inst/doc/fantasy-football.Rmd | 24 inst/doc/fantasy-football.html | 1036 +++++++++++++++++------------------ man/all_players.Rd | 6 man/figures/README-plot_scores-1.png |binary man/player_outlook.Rd | 6 tests/testthat/test-moves.R | 2 tests/testthat/test-outlooks.R | 2 tests/testthat/test-players.R | 7 vignettes/fantasy-football.Rmd | 24 23 files changed, 672 insertions(+), 661 deletions(-)
Title: Estimation of the Proportion of SB Explained by Confounders
Description: Uses parametric and nonparametric methods to quantify the proportion of the estimated selection bias (SB) explained by each observed confounder when estimating propensity score weighted treatment effects. Parast, L and Griffin, BA (2020). "Quantifying the Bias due to Observed Individual Confounders in Causal Treatment Effect Estimates". Statistics in Medicine, 39(18): 2447- 2476 <doi: 10.1002/sim.8549>.
Author: Layla Parast
Maintainer: Layla Parast <parast@rand.org>
Diff between SBdecomp versions 1.0 dated 2020-05-12 and 1.1 dated 2020-11-25
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NAMESPACE | 2 +- R/SBdecomp.R | 18 ++++++++++++------ build/partial.rdb |binary data/petsdata.RData |binary man/SBdecomp-package.Rd | 2 +- man/bar.sbdecomp.Rd | 2 +- man/sbdecomp.Rd | 4 +++- 9 files changed, 31 insertions(+), 23 deletions(-)
Title: Versatile Curation of Table Metadata
Description: A file-based
mechanism for documenting datasets. It reads and writes
YAML-formatted metadata and applies it as data
item attributes. Data and metadata are stored independently
but can be coordinated by using similar file paths with
different extensions. The 'yamlet' dialect is valid 'YAML',
but some conventions are chosen to improve readability.
Defaults and conventions can be over-ridden by the user.
See ?yamlet and ?decorate.data.frame.
See ?read_yamlet ?write_yamlet, and ?io_csv.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between yamlet versions 0.5.1 dated 2020-11-24 and 0.5.2 dated 2020-11-25
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/decorate.R | 2 +- R/explicit_guide.R | 2 +- 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Tidy Data Validation Reports
Description: Tools for creating data validation pipelines and
tidy reports. This package offers a framework for exploring and
validating data frame like objects using 'dplyr' grammar of data
manipulation.
Author: Evgeni Chasnovski [aut, cre] (<https://orcid.org/0000-0002-1617-4019>)
Maintainer: Evgeni Chasnovski <evgeni.chasnovski@gmail.com>
Diff between ruler versions 0.2.3 dated 2020-05-09 and 0.2.4 dated 2020-11-25
ruler-0.2.3/ruler/man/reexports.Rd |only ruler-0.2.4/ruler/DESCRIPTION | 16 ruler-0.2.4/ruler/MD5 | 107 +- ruler-0.2.4/ruler/NAMESPACE | 1 ruler-0.2.4/ruler/NEWS.md | 4 ruler-0.2.4/ruler/R/actions.R | 31 ruler-0.2.4/ruler/R/expose-helpers.R | 36 ruler-0.2.4/ruler/R/expose.R | 102 +- ruler-0.2.4/ruler/R/exposure.R | 85 + ruler-0.2.4/ruler/R/packs.R | 54 - ruler-0.2.4/ruler/R/ruler-package.R | 2 ruler-0.2.4/ruler/R/rules.R | 15 ruler-0.2.4/ruler/R/spread-groups.R | 24 ruler-0.2.4/ruler/R/utils-pipe.R |only ruler-0.2.4/ruler/R/utils.R | 5 ruler-0.2.4/ruler/README.md | 111 +- ruler-0.2.4/ruler/build/vignette.rds |binary ruler-0.2.4/ruler/inst/doc/design-and-format.Rmd | 6 ruler-0.2.4/ruler/inst/doc/design-and-format.html | 370 +++---- ruler-0.2.4/ruler/inst/doc/rule-packs.R | 18 ruler-0.2.4/ruler/inst/doc/rule-packs.Rmd | 26 ruler-0.2.4/ruler/inst/doc/rule-packs.html | 749 +++++++-------- ruler-0.2.4/ruler/inst/doc/validation.R | 12 ruler-0.2.4/ruler/inst/doc/validation.Rmd | 16 ruler-0.2.4/ruler/inst/doc/validation.html | 799 +++++++---------- ruler-0.2.4/ruler/man/act_after_exposure.Rd | 6 ruler-0.2.4/ruler/man/any_breaker.Rd | 1 ruler-0.2.4/ruler/man/assert_any_breaker.Rd | 6 ruler-0.2.4/ruler/man/bind_exposures.Rd | 16 ruler-0.2.4/ruler/man/cell-pack.Rd | 8 ruler-0.2.4/ruler/man/column-pack.Rd | 7 ruler-0.2.4/ruler/man/data-pack.Rd | 14 ruler-0.2.4/ruler/man/expose.Rd | 33 ruler-0.2.4/ruler/man/exposure.Rd | 3 ruler-0.2.4/ruler/man/group-pack.Rd | 12 ruler-0.2.4/ruler/man/inside_punct.Rd | 1 ruler-0.2.4/ruler/man/packs_info.Rd | 11 ruler-0.2.4/ruler/man/pipe.Rd |only ruler-0.2.4/ruler/man/row-pack.Rd | 12 ruler-0.2.4/ruler/man/rule-packs.Rd | 2 ruler-0.2.4/ruler/man/ruler-package.Rd | 4 ruler-0.2.4/ruler/man/ruler-report.Rd | 11 ruler-0.2.4/ruler/man/rules.Rd | 17 ruler-0.2.4/ruler/man/spread_groups.Rd | 1 ruler-0.2.4/ruler/tests/testthat/helper-expose-data.R | 69 - ruler-0.2.4/ruler/tests/testthat/test-actions.R | 163 ++- ruler-0.2.4/ruler/tests/testthat/test-expose-helpers.R | 64 - ruler-0.2.4/ruler/tests/testthat/test-expose.R | 183 ++- ruler-0.2.4/ruler/tests/testthat/test-exposure.R | 116 +- ruler-0.2.4/ruler/tests/testthat/test-packs.R | 61 - ruler-0.2.4/ruler/tests/testthat/test-rules.R | 8 ruler-0.2.4/ruler/tests/testthat/test-spread-groups.R | 64 - ruler-0.2.4/ruler/tests/testthat/test-utils.R | 65 - ruler-0.2.4/ruler/vignettes/design-and-format.Rmd | 6 ruler-0.2.4/ruler/vignettes/rule-packs.Rmd | 26 ruler-0.2.4/ruler/vignettes/validation.Rmd | 16 56 files changed, 1887 insertions(+), 1708 deletions(-)
Title: Linking Patient-Reported Outcomes Measures
Description: Perform scale linking to establish relationships between instruments
that measure similar constructs according to the PROsetta Stone methodology, as in Choi, Schalet, Cook, & Cella (2014) <doi:10.1037/a0035768>.
Author: Seung W. Choi [aut, cre] (<https://orcid.org/0000-0003-4777-5420>),
Sangdon Lim [aut] (<https://orcid.org/0000-0002-2988-014X>),
Benjamin D. Schalet [ctb],
Aaron J. Kaat [ctb],
David Cella [ctb]
Maintainer: Seung W. Choi <schoi@austin.utexas.edu>
Diff between PROsetta versions 0.2.0 dated 2020-09-20 and 0.2.1 dated 2020-11-25
PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/alpha2_3f4081608d050ce976ddb7b5e1e0a683.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/alpha2_3f4081608d050ce976ddb7b5e1e0a683.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/alpha2_3f4081608d050ce976ddb7b5e1e0a683.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/alpha_0345803d49f27d51c0f3ee5f687f2f78.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/alpha_0345803d49f27d51c0f3ee5f687f2f78.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/alpha_0345803d49f27d51c0f3ee5f687f2f78.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib2_844987e1c44a4c824f7b788bff95f10a.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib2_844987e1c44a4c824f7b788bff95f10a.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib2_844987e1c44a4c824f7b788bff95f10a.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib3_6dde06c6cc4ba29bea07e63fd415b9c5.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib3_6dde06c6cc4ba29bea07e63fd415b9c5.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib3_6dde06c6cc4ba29bea07e63fd415b9c5.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib_1b7d905f90d92418f2819759c4d06ed9.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib_1b7d905f90d92418f2819759c4d06ed9.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/calib_1b7d905f90d92418f2819759c4d06ed9.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/eqp_dir_fd943eec124845a64bc09100a57df1b5.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/eqp_dir_fd943eec124845a64bc09100a57df1b5.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/eqp_dir_fd943eec124845a64bc09100a57df1b5.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/eqp_raw_9de97fff5c190503715b2e27d2db4316.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/eqp_raw_9de97fff5c190503715b2e27d2db4316.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/eqp_raw_9de97fff5c190503715b2e27d2db4316.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/fixedpar_15e265aedc8d1e97f5d2afdfc0e135ae.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/fixedpar_15e265aedc8d1e97f5d2afdfc0e135ae.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/fixedpar_15e265aedc8d1e97f5d2afdfc0e135ae.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/mirt_coef_ed17672a8b6a43aa2db9e2eedbbd3f85.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/mirt_coef_ed17672a8b6a43aa2db9e2eedbbd3f85.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/mirt_coef_ed17672a8b6a43aa2db9e2eedbbd3f85.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/mirt_plot_3005f6253c69ecaf2a58412637b4f595.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/mirt_plot_3005f6253c69ecaf2a58412637b4f595.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/mirt_plot_3005f6253c69ecaf2a58412637b4f595.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/omega_7e75d3a862efc4baa2025fe197929cbe.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/omega_7e75d3a862efc4baa2025fe197929cbe.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/omega_7e75d3a862efc4baa2025fe197929cbe.rdx |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/sl_456fd2904030e8839f5e74483b8098bd.RData |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/sl_456fd2904030e8839f5e74483b8098bd.rdb |only PROsetta-0.2.0/PROsetta/vignettes/PROsetta_cache/html/sl_456fd2904030e8839f5e74483b8098bd.rdx |only PROsetta-0.2.1/PROsetta/DESCRIPTION | 14 PROsetta-0.2.1/PROsetta/MD5 | 89 +-- PROsetta-0.2.1/PROsetta/NAMESPACE | 2 PROsetta-0.2.1/PROsetta/NEWS.md | 7 PROsetta-0.2.1/PROsetta/R/core_functions.R | 10 PROsetta-0.2.1/PROsetta/R/helper_functions.R |only PROsetta-0.2.1/PROsetta/README.md | 3 PROsetta-0.2.1/PROsetta/build/vignette.rds |binary PROsetta-0.2.1/PROsetta/inst/doc/PROsetta.html | 241 +++++----- PROsetta-0.2.1/PROsetta/man/getItemNames.Rd |only PROsetta-0.2.1/PROsetta/man/getResponse.Rd |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/alpha2_a29946f4f5d0cca3dc3e255562932092.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/alpha2_a29946f4f5d0cca3dc3e255562932092.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/alpha2_a29946f4f5d0cca3dc3e255562932092.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/alpha_0409ebb27b7b72ee7aac176ef3d5dd88.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/alpha_0409ebb27b7b72ee7aac176ef3d5dd88.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/alpha_0409ebb27b7b72ee7aac176ef3d5dd88.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib2_cbb4e7866403c21020e42df79fe1bde7.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib2_cbb4e7866403c21020e42df79fe1bde7.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib2_cbb4e7866403c21020e42df79fe1bde7.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib3_1b30cb5058fe0279ae7ff20574ed2586.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib3_1b30cb5058fe0279ae7ff20574ed2586.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib3_1b30cb5058fe0279ae7ff20574ed2586.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib_0040d330a2b33c47e7db550ad22aa890.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib_0040d330a2b33c47e7db550ad22aa890.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/calib_0040d330a2b33c47e7db550ad22aa890.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/eqp_dir_0aa9c1a4fb1402cc4e4d2f22c9eaf1c2.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/eqp_dir_0aa9c1a4fb1402cc4e4d2f22c9eaf1c2.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/eqp_dir_0aa9c1a4fb1402cc4e4d2f22c9eaf1c2.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/eqp_raw_315c3d82bd5303c670647e036326e823.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/eqp_raw_315c3d82bd5303c670647e036326e823.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/eqp_raw_315c3d82bd5303c670647e036326e823.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/fixedpar_71d37083af79eb9abbfa06beaf96d65f.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/fixedpar_71d37083af79eb9abbfa06beaf96d65f.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/fixedpar_71d37083af79eb9abbfa06beaf96d65f.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/mirt_coef_122868579fa6981caaeab7c705f3ba4d.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/mirt_coef_122868579fa6981caaeab7c705f3ba4d.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/mirt_coef_122868579fa6981caaeab7c705f3ba4d.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/mirt_plot_87d971052f5c887a53cb87f7a1bab877.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/mirt_plot_87d971052f5c887a53cb87f7a1bab877.rdb |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/mirt_plot_87d971052f5c887a53cb87f7a1bab877.rdx |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/omega_cf19f74a8ba93cb71c27d26c413bd173.RData |only PROsetta-0.2.1/PROsetta/vignettes/PROsetta_cache/html/omega_cf19f74a8ba93cb71c27d26c413bd173.rdb |only 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Title: Tools and Statistical Procedures in Plant Science
Description: The 'inti' package is part of the 'inkaverse' project for developing
different procedures and tools used in plant science and experimental designs.
The mean aim of the package is to support researchers during the planning of
experiments and data collection (tarpuy()), data analysis and graphics (yupana())
, and technical writing (rtciles()).
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] (<https://orcid.org/0000-0002-0714-669X>)
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between inti versions 0.1.1 dated 2020-11-17 and 0.1.2 dated 2020-11-25
inti-0.1.1/inti/inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy_test.dcf |only inti-0.1.1/inti/inst/yupanapro/rsconnect/shinyapps.io/flavjack/yupanapro_test.dcf |only inti-0.1.2/inti/DESCRIPTION | 16 +-- inti-0.1.2/inti/MD5 | 43 ++++------ inti-0.1.2/inti/NAMESPACE | 2 inti-0.1.2/inti/NEWS.md | 9 ++ inti-0.1.2/inti/R/H2cal.R | 1 inti-0.1.2/inti/R/include_table.R | 22 ++--- inti-0.1.2/inti/R/info_table.R | 4 inti-0.1.2/inti/R/outliers_remove.R | 32 ++++--- inti-0.1.2/inti/inst/rticles/rsconnect/shinyapps.io/flavjack/rticles.dcf | 4 inti-0.1.2/inti/inst/rticles/server.R | 3 inti-0.1.2/inti/inst/rticles/ui.R | 3 inti-0.1.2/inti/inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy-test.dcf |only inti-0.1.2/inti/inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy.dcf | 4 inti-0.1.2/inti/inst/tarpuy/server.R | 10 +- inti-0.1.2/inti/inst/tarpuy/ui.R | 5 - inti-0.1.2/inti/inst/yupanapro/rsconnect/shinyapps.io/flavjack/yupanapro.dcf | 4 inti-0.1.2/inti/inst/yupanapro/server.R | 27 +++--- inti-0.1.2/inti/inst/yupanapro/ui.R | 5 - inti-0.1.2/inti/man/H2cal.Rd | 1 inti-0.1.2/inti/man/include_table.Rd | 4 inti-0.1.2/inti/man/info_table.Rd | 4 inti-0.1.2/inti/man/outliers_remove.Rd | 14 +++ 24 files changed, 123 insertions(+), 94 deletions(-)
Title: Cross-Validated Kernel Ensemble
Description: Implementation of Cross-Validated Kernel Ensemble (CVEK),
a flexible modeling framework for robust nonlinear regression and
hypothesis testing based on ensemble learning with kernel-ridge estimators
(Jeremiah et al. (2017) <arXiv:1710.01406> and
Wenying et al. (2018) <arXiv:1811.11025>). It allows user to conduct
nonlinear regression with minimal assumption on the function form by
aggregating nonlinear models generated from a diverse collection of kernel
families. It also provides utilities to test for the estimated nonlinear
effect under this ensemble estimator, using either the asymptotic or
the bootstrap version of a generalized score test.
Author: Wenying Deng [aut, cre],
Jeremiah Zhe Liu [ctb]
Maintainer: Wenying Deng <wdeng@g.harvard.edu>
Diff between CVEK versions 0.1-0 dated 2020-11-23 and 0.1-1 dated 2020-11-25
DESCRIPTION | 8 - MD5 | 30 +++---- R/interface.R | 1 R/predict.R | 1 inst/doc/vignette.R | 9 -- inst/doc/vignette.Rmd | 16 +-- inst/doc/vignette.html | 135 ++++++++++++++++----------------- man/cvek.Rd | 1 man/predict.cvek.Rd | 1 tests/testthat/helper_test_interface.R | 1 tests/testthat/test_est.R | 20 ++-- tests/testthat/test_hypo_test.R | 8 + tests/testthat/test_interface.R | 4 tests/testthat/test_kernel.R | 7 + tests/testthat/test_predict.R | 7 - vignettes/vignette.Rmd | 16 +-- 16 files changed, 139 insertions(+), 126 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-11 0.7.1
2019-09-03 0.7.0
2019-06-05 0.6.1
2019-05-23 0.6.0
2019-01-23 0.5.7
2018-11-15 0.5.6
2018-09-28 0.5.5
2018-05-16 0.5.4
2018-03-10 0.5.3
2018-02-13 0.5.2
2018-01-26 0.5.1
2018-01-05 0.5.0
Title: Advanced 'tryCatch()' and 'try()' Functions
Description: Advanced tryCatch() and try() functions for better error handling
(logging, stack trace with source code references and support for post-mortem analysis via dump files).
Author: Juergen Altfeld [aut, cre, cph],
Charles Epaillard [ctb],
Brandon Bertelsen [ctb]
Maintainer: Juergen Altfeld <jaltfeld@altfeld-im.de>
Diff between tryCatchLog versions 1.1.6 dated 2019-11-06 and 1.2.1 dated 2020-11-25
DESCRIPTION | 14 MD5 | 76 - NEWS.md | 50 R/build_log_entry.R | 27 R/build_log_output.R | 7 R/conditions.R |only R/is_duplicated_log_entry.R | 2 R/last_tryCatchLog_result.R | 20 R/log2console.R | 2 R/tryCatchLog.R | 193 ++- R/tryLog.R | 23 R/zzz.R | 2 inst/doc/01_license.Rmd_child | 2 inst/doc/02_toc.Rmd_child | 22 inst/doc/05_overview.Rmd_child | 12 inst/doc/10_standard_R_conditions.Rmd_child | 6 inst/doc/20_tryCatchLog.Rmd_child | 4 inst/doc/90_appendix.Rmd_child | 4 inst/doc/tryCatchLog-intro.R | 82 - inst/doc/tryCatchLog-intro.html | 1598 ++++++++++++-------------- man/build.log.entry.Rd | 18 man/build.log.output.Rd | 15 man/is.duplicated.log.entry.Rd | 2 man/last.tryCatchLog.result.Rd | 20 man/limitedLabelsCompact.Rd | 7 man/set.logging.functions.Rd | 9 man/tryCatchLog.Rd | 88 - man/tryLog.Rd | 42 tests/testthat/test_build_log_entry.R | 23 tests/testthat/test_build_log_output.R | 71 + tests/testthat/test_dump_files.R | 127 +- tests/testthat/test_execution_context_msg.R |only tests/testthat/test_interrupt.R |only tests/testthat/test_user_defined_conditions.R |only vignettes/01_license.Rmd_child | 2 vignettes/02_toc.Rmd_child | 22 vignettes/05_overview.Rmd_child | 12 vignettes/10_standard_R_conditions.Rmd_child | 6 vignettes/20_tryCatchLog.Rmd_child | 4 vignettes/90_appendix.Rmd_child | 4 vignettes/README_FIRST.txt | 8 41 files changed, 1429 insertions(+), 1197 deletions(-)
Title: Generate Standardized Data
Description: Creates simulated data from structural equation models with standardized loading. Data generation methods are described in Schneider (2013) <doi:10.1177/0734282913478046>.
Author: W. Joel Schneider [aut, cre] (<https://orcid.org/0000-0002-8393-5316>)
Maintainer: W. Joel Schneider <w.joel.schneider@gmail.com>
Diff between simstandard versions 0.5.0 dated 2020-10-22 and 0.6.0 dated 2020-11-25
DESCRIPTION | 6 - MD5 | 20 ++--- NAMESPACE | 2 NEWS.md | 3 R/main.R | 51 ++++++++++++ build/vignette.rds |binary inst/WORDLIST |only inst/doc/simstandard_tutorial.R | 13 ++- inst/doc/simstandard_tutorial.Rmd | 23 +++++ inst/doc/simstandard_tutorial.html | 135 +++++++++++++++------------------- man/get_model_implied_correlations.Rd |only vignettes/simstandard_tutorial.Rmd | 23 +++++ 12 files changed, 182 insertions(+), 94 deletions(-)
Title: Genetics and Independence Testing of Mixed Genetic Panels
Description: Developed to deal with multi-locus genotype data, this package is especially designed for those panel which include different type of markers. Basic genetic parameters like allele frequency, genotype frequency, heterozygosity and Hardy-Weinberg test of mixed genetic data can be obtained. In addition, a new test for mutual independence which is compatible for mixed genetic data is developed in this package.
Author: Bing Song
Maintainer: Bing Song <bingsong@my.unthsc.edu>
Diff between mixIndependR versions 0.3.0 dated 2020-10-07 and 0.4.0 dated 2020-11-25
mixIndependR-0.3.0/mixIndependR/R/AlleleShare_Table.R |only mixIndependR-0.3.0/mixIndependR/R/HWE_Fisher.R |only mixIndependR-0.3.0/mixIndependR/man/AlleleShare_Table.Rd |only mixIndependR-0.3.0/mixIndependR/man/HWE.Fisher.Rd |only mixIndependR-0.4.0/mixIndependR/DESCRIPTION | 10 mixIndependR-0.4.0/mixIndependR/MD5 | 82 mixIndependR-0.4.0/mixIndependR/NAMESPACE | 56 mixIndependR-0.4.0/mixIndependR/NEWS.md | 103 - mixIndependR-0.4.0/mixIndependR/R/AlleleFreq.R | 62 mixIndependR-0.4.0/mixIndependR/R/AlleleShare.R |only mixIndependR-0.4.0/mixIndependR/R/Dist_SimuChisq.R | 58 mixIndependR-0.4.0/mixIndependR/R/FreqAlleleShare.R | 39 mixIndependR-0.4.0/mixIndependR/R/FreqHetero.R | 39 mixIndependR-0.4.0/mixIndependR/R/GenotypeFreq.R | 102 - mixIndependR-0.4.0/mixIndependR/R/HWE_Chisq.R | 118 - mixIndependR-0.4.0/mixIndependR/R/Heterozygous.R | 62 mixIndependR-0.4.0/mixIndependR/R/RealProAlleleShare.R | 37 mixIndependR-0.4.0/mixIndependR/R/Simulate_DistK.R | 64 mixIndependR-0.4.0/mixIndependR/R/Simulate_DistX.R | 69 mixIndependR-0.4.0/mixIndependR/R/mixIndependK.R | 80 mixIndependR-0.4.0/mixIndependR/R/mixIndependX.R | 79 mixIndependR-0.4.0/mixIndependR/R/read_vcf_gt.R |only mixIndependR-0.4.0/mixIndependR/R/splitGenotype.R |only mixIndependR-0.4.0/mixIndependR/README.md | 59 mixIndependR-0.4.0/mixIndependR/build/vignette.rds |binary mixIndependR-0.4.0/mixIndependR/inst/doc/BasicGenetics.R | 95 mixIndependR-0.4.0/mixIndependR/inst/doc/BasicGenetics.Rmd | 164 - mixIndependR-0.4.0/mixIndependR/inst/doc/BasicGenetics.html | 1003 +++++----- mixIndependR-0.4.0/mixIndependR/inst/doc/DistributionBuildingNComparison.R | 98 mixIndependR-0.4.0/mixIndependR/inst/doc/DistributionBuildingNComparison.Rmd | 134 - mixIndependR-0.4.0/mixIndependR/inst/doc/DistributionBuildingNComparison.html | 796 ++++--- mixIndependR-0.4.0/mixIndependR/inst/doc/HypothesisTest.R | 82 mixIndependR-0.4.0/mixIndependR/inst/doc/HypothesisTest.Rmd | 114 - mixIndependR-0.4.0/mixIndependR/inst/doc/HypothesisTest.html | 742 +++---- mixIndependR-0.4.0/mixIndependR/man/AlleleFreq.Rd | 15 mixIndependR-0.4.0/mixIndependR/man/AlleleShare.Rd |only mixIndependR-0.4.0/mixIndependR/man/GenotypeFreq.Rd | 20 mixIndependR-0.4.0/mixIndependR/man/HWE.Chisq.Rd | 23 mixIndependR-0.4.0/mixIndependR/man/Heterozygous.Rd | 14 mixIndependR-0.4.0/mixIndependR/man/Simulate_DistX.Rd | 2 mixIndependR-0.4.0/mixIndependR/man/mixIndependK.Rd | 16 mixIndependR-0.4.0/mixIndependR/man/mixIndependX.Rd | 16 mixIndependR-0.4.0/mixIndependR/man/read_vcf_gt.Rd |only mixIndependR-0.4.0/mixIndependR/man/splitGenotype.Rd |only mixIndependR-0.4.0/mixIndependR/vignettes/BasicGenetics.Rmd | 164 - mixIndependR-0.4.0/mixIndependR/vignettes/DistributionBuildingNComparison.Rmd | 134 - mixIndependR-0.4.0/mixIndependR/vignettes/HypothesisTest.Rmd | 114 - 47 files changed, 2366 insertions(+), 2499 deletions(-)
Title: Bayesian Spatial Split Population Survival Model
Description: Parametric spatial split-population (SP) survival models for clustered
event processes. The models account for structural and spatial heterogeneity among
“at risk” and “immune” populations, and incorporate time-varying covariates.
This package currently implements Weibull, Exponential and Log-logistic forms for
the duration component. It also includes functions for a series of diagnostic
tests and plots to easily visualize spatial autocorrelation, convergence, and spatial effects. Users can
create their own spatial weights matrix based on their units and adjacencies of
interest, making the use of these models flexible and broadly applicable to a
variety of research areas. Joo et al. (2020) <https://github.com/Nicolas-Schmidt/BayesSPsurv/blob/master/man/figures/SPcure.pdf> describe
the estimators included in this package.
Author: Brandon L. Bolte [aut],
Nicolas Schmidt [aut, cre],
Sergio Bejar [aut],
Bumba Mukherjee [aut],
Minnie M. Joo [ctb],
Nguyen K. Huynh [ctb]
Maintainer: Nicolas Schmidt <nschmidt@cienciassociales.edu.uy>
Diff between BayesSPsurv versions 0.1.0 dated 2020-09-28 and 0.1.1 dated 2020-11-25
DESCRIPTION | 12 +++++---- MD5 | 24 +++++++++++-------- NAMESPACE | 2 + NEWS.md |only R/exchangeSPsurv.R | 2 - R/plots.R |only R/pooledSPsurv.R | 2 - R/spatialSPsurv.R | 2 - R/utils.R | 60 ++++++++++++++++++++++++++++++++++++++++++++++--- README.md | 12 +++++++-- man/exchangeSPsurv.Rd | 2 - man/plot_JointCount.Rd |only man/plot_Moran.I.Rd |only man/pooledSPsurv.Rd | 2 - man/spatialSPsurv.Rd | 2 - 15 files changed, 95 insertions(+), 27 deletions(-)