Title: Independent Surrogate Variable Analysis
Description: Independent Surrogate Variable Analysis is an algorithm
for feature selection in the presence of potential confounding
factors (see Teschendorff AE et al 2011, <doi: 10.1093/bioinformatics/btr171>).
Author: Andrew E Teschendorff
Maintainer: Andrew Teschendorff <a.teschendorff@ucl.ac.uk>
Diff between isva versions 1.8 dated 2013-11-04 and 1.9 dated 2017-01-13
DESCRIPTION | 12 ++++----- MD5 | 14 +++++----- NAMESPACE | 9 +++--- R/DoISVA.R | 4 +-- R/isvaFn.R | 69 ++++++++++++++++++++++++++++++++++++---------------- man/DoISVA.Rd | 43 +++++++++++++++++++++++++++----- man/isva-package.Rd | 15 +++++++++-- man/isvaFn.Rd | 11 ++++++-- 8 files changed, 124 insertions(+), 53 deletions(-)
Title: Automated Spectral Deconvolution, Alignment, and Metabolite
Identification in GC/MS-Based Untargeted Metabolomics
Description: Automated compound deconvolution, alignment across samples, and identification of metabolites by spectral library matching in Gas Chromatography - Mass spectrometry (GC-MS) untargeted metabolomics. Outputs a table with compound names, matching scores and the integrated area of the compound for each sample.
Author: Xavier Domingo-Almenara, Sara Samino, Maria Vinaixa, Alexandre Perera, Oscar Yanes
Maintainer: Xavier Domingo-Almenara <xdomingo@scripps.edu>
Diff between erah versions 1.0.4 dated 2016-10-18 and 1.0.5 dated 2017-01-13
erah-1.0.4/erah/NEWS |only erah-1.0.5/erah/DESCRIPTION | 15 +-- erah-1.0.5/erah/MD5 | 48 +++++----- erah-1.0.5/erah/NAMESPACE | 5 - erah-1.0.5/erah/R/DB.R | 85 ------------------- erah-1.0.5/erah/R/MSexport.R |only erah-1.0.5/erah/R/MSimport.R | 86 ++++++++++++++++++- erah-1.0.5/erah/R/erah.R | 2 erah-1.0.5/erah/R/file.R | 114 ++++++++++++-------------- erah-1.0.5/erah/R/plotting.R | 4 erah-1.0.5/erah/R/processing.R | 26 +++-- erah-1.0.5/erah/R/support_methods.R | 8 + erah-1.0.5/erah/R/zzz.R | 24 ++++- erah-1.0.5/erah/build/vignette.rds |binary erah-1.0.5/erah/data/mslib.rda |binary erah-1.0.5/erah/inst/CITATION |only erah-1.0.5/erah/inst/NEWS |only erah-1.0.5/erah/inst/doc/eRahManual.pdf |binary erah-1.0.5/erah/inst/doc/eRahManual.pdf.asis | 2 erah-1.0.5/erah/man/alignComp.Rd | 4 erah-1.0.5/erah/man/createdt.Rd | 2 erah-1.0.5/erah/man/deconvolveComp.Rd | 1 erah-1.0.5/erah/man/export2CEF.Rd |only erah-1.0.5/erah/man/importGMD.Rd |only erah-1.0.5/erah/man/importMSP.Rd | 42 ++++++++- erah-1.0.5/erah/man/newExp.Rd | 2 erah-1.0.5/erah/man/setDecPar.Rd | 3 erah-1.0.5/erah/vignettes/eRahManual.pdf.asis | 2 28 files changed, 255 insertions(+), 220 deletions(-)
Title: Exploring Genomic Relations for Enhanced Interpretation Through
Enrichment, Similarity, Network and Annotation Analysis
Description: The central goal of XGR is to provide a data interpretation system. It is designed to make a user-defined gene or SNP list (or genomic regions) more interpretable by comprehensively utilising ontology annotations and interaction networks to reveal relationships and enhance opportunities for biological discovery. XGR is unique in supporting a broad range of ontologies (including knowledge of biological and molecular functions, pathways, diseases and phenotypes - in both human and mouse) and different types of networks (including functional, physical and pathway interactions). There are two core functionalities of XGR. The first is to provide basic infrastructures for easy access to built-in ontologies and networks. The second is to support data interpretations via 1) enrichment analysis using either built-in or custom ontologies, 2) similarity analysis for calculating semantic similarity between genes (or SNPs) based on their ontology annotation profiles, 3) network analysis for identification of gene networks given a query list of (significant) genes, SNPs or genomic regions, and 4) annotation analysis for interpreting genomic regions using co-localised functional genomic annotations (such as open chromatin, epigenetic marks, TF binding sites and genomic segments) and using nearby gene annotations (by ontologies). Together with its web app, XGR aims to provide a user-friendly tool for exploring genomic relations at the gene, SNP and genomic region level.
Author: Hai Fang, Bogdan Knezevic, Katie L Burnham, Julian C Knight
Maintainer: Hai Fang <hfang@well.ox.ac.uk>
Diff between XGR versions 1.0.7 dated 2017-01-12 and 1.0.8 dated 2017-01-13
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- R/xCheckParallel.r | 4 +++- R/xDAGsim.r | 2 +- R/xGRviaGenomicAnnoAdv.r | 2 +- R/xSocialiser.r | 2 +- inst/NEWS | 2 +- inst/xCheckParallel.html | 5 ++++- inst/xDAGsim.html | 10 ++++------ inst/xGRviaGenomicAnnoAdv.html | 10 ++++------ inst/xSocialiser.html | 10 ++++------ man/xCheckParallel.Rd | 4 +++- man/xDAGsim.Rd | 10 ++++------ man/xGRviaGenomicAnnoAdv.Rd | 10 ++++------ man/xSocialiser.Rd | 10 ++++------ 15 files changed, 56 insertions(+), 61 deletions(-)
Title: Sensitivity Analysis for Comparative Methods
Description: An implementation of sensitivity analysis in phylogenetic regression models,
for both linear and logistic phylogenetic regressions. The package is an umbrella
of statistical and graphical methods that estimate and report different types of
uncertainty in PGLS models:
(i) Species Sampling uncertainty (sample size; influential species and clades).
(ii) Phylogenetic uncertainty (different topologies and/or branch lengths).
(iii) Data uncertainty (intraspecific variation and measurement error).
Author: Gustavo Paterno [cre, aut],
Gijsbert Werner [aut],
Caterina Penone [aut]
Maintainer: Gustavo Paterno <paternogbc@gmail.com>
Diff between sensiPhy versions 0.5.0 dated 2016-07-18 and 0.6.0 dated 2017-01-13
DESCRIPTION | 15 + MD5 | 63 +++++--- NAMESPACE | 1 NEWS.md | 28 +++ R/clade_phyglm.R | 280 ++++++++++++++++++++---------------- R/clade_phylm.R | 270 +++++++++++++++++++--------------- R/document-data.R | 144 ++++++++++++++++++ R/intra_phyglm.R | 13 + R/intra_phylm.R | 17 +- R/match_dataphy.R | 32 ++-- R/miss.phylo.d.R |only R/sensi_plot.sensiClade.R | 61 ++++++- R/sensi_plot.sensiInflu.R | 65 +++++--- R/sensi_plot.sensiIntra.sensiTree.R | 16 +- R/sensi_plot.sensiSamp.R | 40 ++--- R/summary_methods.R | 90 +++++++++-- build |only data/alien.data.rda |only data/alien.phy.rda |only data/alien.rda |binary data/primates.data.rda |only data/primates.phy.rda |only data/primates.rda |binary inst |only man/alien.data.Rd |only man/alien.phy.Rd |only man/clade_phyglm.Rd | 16 +- man/clade_phylm.Rd | 16 +- man/intra_phyglm.Rd | 12 + man/intra_phylm.Rd | 16 +- man/match_dataphy.Rd | 14 + man/miss.phylo.d.Rd |only man/primates.Rd | 4 man/primates.data.Rd |only man/primates.phy.Rd |only man/sensi_plot.sensiClade.Rd | 16 +- man/sensi_plot.sensiInflu.Rd | 4 vignettes |only 38 files changed, 837 insertions(+), 396 deletions(-)
Title: Interactive Visualizations for Profiling R Code
Description: Interactive visualizations for profiling R code.
Author: Winston Chang [aut, cre],
Javier Luraschi [aut],
RStudio [cph],
jQuery Foundation [cph] (jQuery library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/www/shared/jquery-AUTHORS.txt),
Mike Bostock [ctb, cph] (D3 library),
D3 contributors [ctb] (D3 library),
Ivan Sagalaev [ctb, cph] (highlight.js library)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between profvis versions 0.3.2 dated 2016-05-19 and 0.3.3 dated 2017-01-13
DESCRIPTION | 8 +- MD5 | 13 ++- NEWS.md |only R/file_contents.R | 160 +++++++++++++++++++++++++------------------- R/parse.R | 2 R/utils.R | 8 ++ tests/manual-test-source.R |only tests/manual-tests.R |only tests/testthat/test-parse.R | 2 9 files changed, 117 insertions(+), 76 deletions(-)
Title: Fast and Exact Algorithms for Computing Phylogenetic
Biodiversity Measures
Description: Given a phylogenetic tree T and an assemblage S of species represented as
a subset of tips in T, we want to compute a measure of the diversity
of the species in S with respect to T. The current package offers
efficient algorithms that can process large phylogenetic data for several such measures.
Most importantly, the package includes algorithms for computing
efficiently the standardized versions of phylogenetic measures and their p-values, which are
essential for null model comparisons. Among other functions,
the package provides efficient computation of richness-standardized versions
for indices such as the net relatedness index (NRI),
nearest taxon index (NTI), phylogenetic
diversity index (PDI), and the corresponding indices of two-sample measures.
The package also introduces a new
single-sample measure, the Core Ancestor Cost (CAC); the package provides
functions for computing the value and the standardised index of the CAC and,
more than that, there is an extra function available that can compute exactly
any statistical moment of the measure. The package supports computations
under different null models, including abundance-weighted models.
Author: Constantinos Tsirogiannis [aut, cre], Brody Sandel [aut]
Maintainer: Constantinos Tsirogiannis <tsirogiannis.c@gmail.com>
Diff between PhyloMeasures versions 2.0 dated 2017-01-12 and 2.1 dated 2017-01-13
DESCRIPTION | 8 +-- MD5 | 26 +++++----- man/PhyloMeasures-package.Rd | 4 - src/Incremental_Monte_Carlo_types/Incremental_Monte_Carlo_handler.h | 2 src/Measures/Core_ancestor_cost_impl.h | 4 - src/Measures/Mean_nearest_taxon_distance_impl.h | 2 src/Measures/Measure_base/Measure_base_bimodal.h | 2 src/Measures/Measure_base/Measure_base_unimodal.h | 2 src/Measures/Poisson_binomial_moments_Phylogenetic_diversity.h | 3 - src/Measures/Polynomial_related_types/Polynomial_rep.h | 18 +----- src/Numeric_traits_types/Protected_number_type.h | 2 src/PhyloMeasures.cpp | 12 +--- src/Phylogenetic_tree_base_impl.h | 1 tests/tests.R | 18 ++++++ 14 files changed, 50 insertions(+), 54 deletions(-)
Title: Nelson-Aalen Estimator of the Cumulative Hazard in Multistate
Models
Description: Computes the Nelson-Aalen estimator of the cumulative transition hazard for arbitrary Markov multistate models <ISBN:978-0-387-68560-1>.
Author: Arthur Allignol
Maintainer: Arthur Allignol <arthur.allignol@uni-ulm.de>
Diff between mvna versions 1.2-3 dated 2013-12-18 and 2.0 dated 2017-01-13
mvna-1.2-3/mvna/R/msmplot.mvna.R |only mvna-1.2-3/mvna/man/msmplot.Rd |only mvna-2.0/mvna/ChangeLog | 6 ++++++ mvna-2.0/mvna/DESCRIPTION | 16 +++++++--------- mvna-2.0/mvna/LICENSE |only mvna-2.0/mvna/MD5 | 12 ++++++------ mvna-2.0/mvna/NAMESPACE | 6 ++++-- mvna-2.0/mvna/R/mvna.R | 2 +- mvna-2.0/mvna/README.md |only 9 files changed, 24 insertions(+), 18 deletions(-)
Title: Multivariate ARIMA and ARIMA-X Analysis
Description: Multivariate ARIMA and ARIMA-X estimation using Spliid's
algorithm (marima()) and simulation (marima.sim()).
Author: Henrik Spliid
Maintainer: Henrik Spliid <hspl@dtu.dk>
Diff between marima versions 2.1 dated 2016-08-29 and 2.2 dated 2017-01-13
DESCRIPTION | 10 +++--- MD5 | 22 ++++++++------ NAMESPACE | 1 R/Data2.R | 2 - R/Lin.Results.R |only R/arma.forecasting.R | 4 +- R/marima.R | 75 ++++++++++++++++++++++++++++++++++++++++----------- R/marima.sim.R | 5 +-- man/C20.Rd | 2 - man/Results.Rd |only man/arma.filter.Rd | 2 - man/marima.Rd | 23 ++++++++++++--- man/marima.sim.Rd | 5 +-- 13 files changed, 106 insertions(+), 45 deletions(-)
Title: Download and Aggregate High Frequency Trading Data from Bovespa
Description: Downloads and aggregates high frequency trading data for Brazilian instruments directly from Bovespa ftp site <ftp://ftp.bmf.com.br/MarketData/>.
Author: Marcelo Perlin [aut, cre],
Henrique Ramos [ctb]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between GetHFData versions 1.2.2 dated 2016-12-05 and 1.2.3 dated 2017-01-13
DESCRIPTION | 8 +- MD5 | 20 ++--- NEWS.md | 7 ++ R/ghfd_get_HF_data.R | 32 ++++++--- R/ghfd_get_available_tickers_from_ftp.R | 4 - R/ghfd_read_file.R | 8 ++ inst/doc/ghfd-vignette.R | 4 - inst/doc/ghfd-vignette.Rmd | 4 - inst/doc/ghfd-vignette.html | 22 +++--- man/ghfd_get_HF_data.Rd | 110 ++++++++++++++++---------------- vignettes/ghfd-vignette.Rmd | 4 - 11 files changed, 125 insertions(+), 98 deletions(-)
Title: Package for Environmental Statistics, Including US EPA Guidance
Description: Graphical and statistical analyses of environmental data, with
focus on analyzing chemical concentrations and physical parameters, usually in
the context of mandated environmental monitoring. Major environmental
statistical methods found in the literature and regulatory guidance documents,
with extensive help that explains what these methods do, how to use them,
and where to find them in the literature. Numerous built-in data sets from
regulatory guidance documents and environmental statistics literature. Includes
scripts reproducing analyses presented in the book "EnvStats: An R Package for
Environmental Statistics" (Millard, 2013, Springer, ISBN 978-1-4614-8455-4,
<http://www.springer.com/book/9781461484554>).
Author: Steven P. Millard <EnvStats@ProbStatInfo.com>
Maintainer: Steven P. Millard <EnvStats@ProbStatInfo.com>
Diff between EnvStats versions 2.1.1 dated 2016-06-14 and 2.2.1 dated 2017-01-13
DESCRIPTION | 15 MD5 | 279 ++++++------ NAMESPACE | 9 NEWS | 32 + R/EnvStats-internal.R | 2 R/StatMeanSDText.R |only R/StatMedianIQRText.R |only R/StatNText.R |only R/StatTestText.R |only R/boxcoxMultiplyCensored.R | 18 R/boxcoxSinglyCensored.R | 2 R/ci.qnpar.R | 81 +-- R/ci.qnpar.exact.R |only R/ci.qnpar.interpolate.R |only R/ci.qnpar.normal.approx.R |only R/eqnpar.R | 21 R/geom_stripchart.R |only R/nyblom.lambda.R |only R/ppccNormMultiplyCensoredGofTest.R | 17 R/sfMultiplyCensoredGofTest.R | 13 R/stat_mean_sd_text.R |only R/stat_median_iqr_text.R |only R/stat_n_text.R |only R/stat_test_text.R |only data/ACE.13.TCE.df.rda |binary data/Air.df.rda |binary data/Benthic.df.rda |binary data/Distribution.df.rda |binary data/EPA.02d.Ex.2.ug.per.L.vec.rda |binary data/EPA.02d.Ex.4.mg.per.kg.vec.rda |binary data/EPA.02d.Ex.6.mg.per.kg.vec.rda |binary data/EPA.02d.Ex.9.mg.per.L.vec.rda |binary data/EPA.09.Ex.10.1.nickel.df.rda |binary data/EPA.09.Ex.11.1.arsenic.df.rda |binary data/EPA.09.Ex.12.1.ccl4.df.rda |binary data/EPA.09.Ex.12.4.naphthalene.df.rda |binary data/EPA.09.Ex.13.1.iron.df.rda |binary data/EPA.09.Ex.14.1.manganese.df.rda |binary data/EPA.09.Ex.14.3.alkalinity.df.rda |binary data/EPA.09.Ex.14.4.arsenic.df.rda |binary data/EPA.09.Ex.14.8.df.rda |binary data/EPA.09.Ex.15.1.manganese.df.rda |binary data/EPA.09.Ex.16.1.sulfate.df.rda |binary data/EPA.09.Ex.16.2.benzene.df.rda |binary data/EPA.09.Ex.16.4.copper.df.rda |binary data/EPA.09.Ex.16.5.PCE.df.rda |binary data/EPA.09.Ex.17.1.loglead.df.rda |binary data/EPA.09.Ex.17.2.toluene.df.rda |binary data/EPA.09.Ex.17.3.chrysene.df.rda |binary data/EPA.09.Ex.17.3.log.chrysene.df.rda |binary data/EPA.09.Ex.17.4.copper.df.rda |binary data/EPA.09.Ex.17.5.chloride.df.rda |binary data/EPA.09.Ex.17.6.sulfate.df.rda |binary data/EPA.09.Ex.17.7.sodium.df.rda |binary data/EPA.09.Ex.18.1.arsenic.df.rda |binary data/EPA.09.Ex.18.2.chrysene.df.rda |binary data/EPA.09.Ex.18.3.TCE.df.rda |binary data/EPA.09.Ex.18.4.xylene.df.rda |binary data/EPA.09.Ex.19.1.sulfate.df.rda |binary data/EPA.09.Ex.19.2.chloride.df.rda |binary data/EPA.09.Ex.19.5.mercury.df.rda |binary data/EPA.09.Ex.20.1.nickel.df.rda |binary data/EPA.09.Ex.21.1.aldicarb.df.rda |binary data/EPA.09.Ex.21.2.benzene.df.rda |binary data/EPA.09.Ex.21.5.beryllium.df.rda |binary data/EPA.09.Ex.21.6.nitrate.df.rda |binary data/EPA.09.Ex.21.7.TCE.df.rda |binary data/EPA.09.Ex.22.1.VC.df.rda |binary data/EPA.09.Ex.22.2.Specific.Conductance.df.rda |binary data/EPA.09.Ex.6.3.sulfate.df.rda |binary data/EPA.09.Ex.7.1.arsenic.df.rda |binary data/EPA.09.Table.9.1.TCE.df.rda |binary data/EPA.09.Table.9.3.df.rda |binary data/EPA.09.Table.9.4.nickel.vec.rda |binary data/EPA.89b.aldicarb1.df.rda |binary data/EPA.89b.aldicarb2.df.rda |binary data/EPA.89b.benzene.df.rda |binary data/EPA.89b.cadmium.df.rda |binary data/EPA.89b.chlordane1.df.rda |binary data/EPA.89b.chlordane2.df.rda |binary data/EPA.89b.edb.df.rda |binary data/EPA.89b.lead.df.rda |binary data/EPA.89b.loglead.df.rda |binary data/EPA.89b.manganese.df.rda |binary data/EPA.89b.sulfate.df.rda |binary data/EPA.89b.t29.df.rda |binary data/EPA.89b.toc.vec.rda |binary data/EPA.92c.arsenic1.df.rda |binary data/EPA.92c.arsenic2.df.rda |binary data/EPA.92c.arsenic3.df.rda |binary data/EPA.92c.benzene1.df.rda |binary data/EPA.92c.benzene2.df.rda |binary data/EPA.92c.ccl4.df.rda |binary data/EPA.92c.chrysene.df.rda |binary data/EPA.92c.copper1.df.rda |binary data/EPA.92c.copper2.df.rda |binary data/EPA.92c.lognickel1.df.rda |binary data/EPA.92c.nickel1.df.rda |binary data/EPA.92c.nickel2.df.rda |binary data/EPA.92c.toluene.df.rda |binary data/EPA.92c.zinc.df.rda |binary data/EPA.92d.chromium.df.rda |binary data/EPA.92d.chromium.vec.rda |binary data/EPA.94b.lead.df.rda |binary data/EPA.94b.tccb.df.rda |binary data/EPA.97.cadmium.111.df.rda |binary data/Environmental.df.rda |binary data/Gibbons.et.al.09.Alkilinity.vec.rda |binary data/Gibbons.et.al.09.Vinyl.Chloride.vec.rda |binary data/Graham.et.al.75.etu.df.rda |binary data/Helsel.Cohn.88.app.b.df.rda |binary data/Helsel.Cohn.88.silver.df.rda |binary data/Helsel.Hirsch.02.Mayfly.df.rda |binary data/Lin.Evans.80.df.rda |binary data/Millard.Deverel.88.df.rda |binary data/Modified.TcCB.df.rda |binary data/NIOSH.89.air.lead.vec.rda |binary data/Olympic.NH4.df.rda |binary data/Ozone.NE.df.rda |binary data/Refinery.CO.df.rda |binary data/Skagit.NH3_N.df.rda |binary data/Total.P.df.rda |binary inst/doc/EnvStats-manual.pdf |binary man/Distribution.df.Rd | 2 man/EnvStats-package.Rd | 25 - man/FcnsByCat.Rd | 1 man/FcnsByCatPlotUsingggplot2.Rd |only man/FcnsByCatSumStats.Rd | 14 man/boxcox.object.Rd | 2 man/boxcoxCensored.object.Rd | 2 man/boxcoxLm.object.Rd | 2 man/elnormAltCensored.Rd | 2 man/elnormCensored.Rd | 2 man/enormCensored.Rd | 2 man/eqnpar.Rd | 522 ++++++++++++++++++++---- man/geoSD.Rd | 2 man/geom_stripchart.Rd |only man/gofTestCensored.Rd | 2 man/serialCorrelationTest.Rd | 2 man/simulateMvMatrix.Rd | 2 man/simulateVector.Rd | 2 man/stat_mean_sd_text.Rd |only man/stat_median_iqr_text.Rd |only man/stat_n_text.Rd |only man/stat_test_text.Rd |only man/stripChart.Rd | 36 + man/tTestN.Rd | 31 + man/tTestPower.Rd | 23 - man/tTestScaledMdd.Rd | 14 man/tolIntNpar.Rd | 4 150 files changed, 844 insertions(+), 339 deletions(-)
Title: Phase I Control Charts (with Emphasis on Distribution-Free
Methods)
Description: Statistical methods for retrospectively detecting changes in location and/or dispersion of univariate and multivariate variables. Data values are assumed to be independent, can be individual (one observation at each instant of time) or subgrouped (more than one observation at each instant of time). Control limits are computed, often using a permutation approach, so that a prescribed false alarm probability is guaranteed without making any parametric assumptions on the stable (in-control) distribution.
Author: Giovanna Capizzi and Guido Masarotto
Maintainer: Giovanna Capizzi <giovanna.capizzi@unipd.it>
Diff between dfphase1 versions 1.1.0 dated 2017-01-10 and 1.1.1 dated 2017-01-13
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS | 5 ++++- build/partial.rdb |binary src/lars.cpp | 14 +++++++------- 5 files changed, 18 insertions(+), 15 deletions(-)
Title: A Binary Download Manager
Description: Tools and functions for managing the download of binary files.
Binary repositories are defined in 'YAML' format. Defining new
pre-download, download and post-download templates allow additional
repositories to be added.
Author: John Harrison [aut, cre] (R package binman)
Maintainer: John Harrison <johndharrison0@gmail.com>
Diff between binman versions 0.0.7 dated 2016-12-11 and 0.1.0 dated 2017-01-13
DESCRIPTION | 11 ++++++----- MD5 | 22 ++++++++++++++-------- NAMESPACE | 10 ++++++++++ NEWS.md | 9 +++++++++ R/process_yaml.R | 29 +++++++++++++++++------------ R/utils.R | 35 +++++++++++++++++++++++++++++++++-- README.md | 2 +- man/increment_version.Rd |only man/parse_version.Rd |only man/process_yaml.Rd | 4 +++- man/render_version.Rd |only man/reset_version.Rd |only man/set_version.Rd |only tests/testthat/helper.R |only tests/testthat/test-binman_utils.R | 20 ++++++++++++++++++++ 15 files changed, 113 insertions(+), 29 deletions(-)
Title: Read and Analyze 'PLEXOS' Solutions
Description: Efficiently read and analyze 'PLEXOS' solutions by converting
them into 'SQLite' databases that can be easily queried. It supports collation
of solutions that may have been divided into different time partitions, as
well as the comparison across different scenarios. 'PLEXOS' is a power systems
production cost model, created and distributed by Energy Exemplar (see <http://energyexemplar.com/software/plexos-desktop-edition>
for more information).
Author: Jef Daniels [cre, aut],
Clayton Barrows [ctb],
Eduardo Ibanez [aut],
Marcin Kalicinski [ctb] (for the included RapidXml source),
National Renewable Energy Laboratory [cph]
Maintainer: Jef Daniels <jef.daniels1@gmail.com>
Diff between rplexos versions 1.1.8 dated 2016-08-26 and 1.1.11 dated 2017-01-13
DESCRIPTION | 26 LICENSE | 4 MD5 | 103 - NAMESPACE | 122 +- R/RcppExports.R | 22 R/auxiliary.R | 182 +-- R/debug.R | 143 +- R/globalVariables.R | 20 R/help.R | 44 R/log_parser.R | 180 +-- R/parallel.R | 154 +- R/plexos_open.R | 248 ++-- R/process_folder.R | 254 ++-- R/process_input.R | 640 +++++------ R/process_solution.R | 1432 +++++++++++++------------ R/query.R | 1465 +++++++++++++------------- R/query_summary.R | 250 ++-- R/zzz.R | 37 README.md | 38 build/vignette.rds |binary inst/doc/rplexos.R | 163 +- inst/doc/rplexos.Rmd | 386 +++--- inst/doc/rplexos.html | 501 ++++---- inst/extdata/database/README.md | 2 inst/extdata/database/load-timedata.csv |only inst/extdata/database/wind-timedata.csv |only inst/extdata/solution/LT_solution |only inst/extdata/solution/Model_Base_Solution.zip |binary inst/extdata/solution/ST_solution |only man/get_query.Rd | 44 man/is_otf_rplexos.Rd |only man/is_sample_stats.Rd | 46 man/list_folders.Rd | 32 man/location_solution_rplexos.Rd | 35 man/plexos_open.Rd | 56 man/process_folder.Rd | 122 +- man/query_class_member.Rd | 72 - man/query_config.Rd | 70 - man/query_log.Rd | 76 - man/query_master.Rd | 273 ++-- man/query_master_each.Rd | 73 - man/query_phase.Rd | 60 - man/query_property.Rd | 70 - man/query_sql.Rd | 76 - man/query_time.Rd | 42 man/rplexos.Rd | 50 man/start_debug_rplexos.Rd | 44 man/start_parallel_rplexos.Rd | 76 - man/valid_columns.Rd | 30 src/RcppExports.cpp | 18 tests/testthat.R | 8 tests/testthat/test_process.R | 102 + tests/testthat/test_query.R | 508 +++++---- vignettes/rplexos.Rmd | 386 +++--- 54 files changed, 4591 insertions(+), 4194 deletions(-)
Title: A CanIStream.It API Wrapper
Description: A wrapper for the 'CanIStream.It' API for searching across the
most popular streaming, rental, and purchase services to find where a
movie is available. See <http://www.canistream.it/> for more information.
Author: Mikhail Popov [aut, cre] (@bearloga on Twitter)
Maintainer: Mikhail Popov <mikhail@mpopov.com>
Diff between cablecuttr versions 0.1.0 dated 2016-10-25 and 0.1.1 dated 2017-01-13
DESCRIPTION | 14 +-- MD5 | 14 +-- NEWS.md | 7 + R/query.R | 222 ++++++++++++++++++++++++++++------------------------ R/utils.R | 12 -- README.md | 49 ++++++----- man/can_i_stream.Rd | 11 -- man/find_movie.Rd | 17 +-- 8 files changed, 183 insertions(+), 163 deletions(-)
Title: Tree Ring Analysis of Disturbance Events in R
Description: Tree Ring Analysis of Disturbance Events in R (TRADER) package provides only one way for disturbance reconstruction from tree-ring data.
Author: Pavel Fibich <pavel.fibich@prf.jcu.cz>, Jan Altman <altman.jan@gmail.com>, Tuomas Aakala <tuomas.aakala@helsinki.fi>, Jiri Dolezal <jiriddolezal@gmail.com>
Maintainer: Pavel Fibich <pavel.fibich@prf.jcu.cz>
Diff between TRADER versions 1.2-2 dated 2016-10-20 and 1.2-3 dated 2017-01-13
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/trader.R | 20 +++++++++++--------- man/TRADER-package.Rd | 4 ++-- man/help.Rd | 7 +++++-- 5 files changed, 26 insertions(+), 21 deletions(-)
Title: Fit Generalized Odds Rate Hazards Model with Interval Censored
Data
Description: Generalized Odds Rate Hazards (GORH) model is a flexible model of fitting survival data, including the Proportional Hazards (PH) model and the Proportional Odds (PO) Model as special cases. This package fit the GORH model with interval censored data.
Author: Jie Zhou, Jiajia Zhang, Wenbin Lu
Maintainer: Jie Zhou <zhoujie02569@gmail.com>
Diff between ICGOR versions 1.0 dated 2016-03-21 and 2.0 dated 2017-01-13
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NAMESPACE | 2 +- R/EM.Iter.R | 7 ++++--- R/GORH.R | 6 +++--- R/predict.GORH.R | 9 +++++++-- man/GORH.Rd | 5 ++--- man/ICGOR-package.Rd | 7 +++---- man/predict.GORH.Rd | 2 +- 9 files changed, 33 insertions(+), 29 deletions(-)
Title: Fit Generalized Odds Rate Mixture Cure Model with Interval
Censored Data
Description: Generalized Odds Rate Mixture Cure (GORMC) model is a flexible model of fitting survival data with a cure fraction, including the Proportional Hazards Mixture Cure (PHMC) model and the Proportional Odds Mixture Cure Model as special cases. This package fit the GORMC model with interval censored data.
Author: Jie Zhou, Jiajia Zhang, Wenbin Lu
Maintainer: Jie Zhou <zhoujie02569@gmail.com>
Diff between GORCure versions 1.0 dated 2016-03-21 and 2.0 dated 2017-01-13
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NAMESPACE | 4 ++-- R/EM.Iter.R | 7 +++++-- R/GORMC.R | 4 ++-- R/predict.GORMC.R | 16 +++++++++++++--- man/GORCure-package.Rd | 9 ++++----- man/GORMC.Rd | 3 +-- man/predict.GORMC.Rd | 6 +++--- 9 files changed, 42 insertions(+), 31 deletions(-)
Title: Get Images Out of DICOM Format Quickly
Description: Provides tools to convert DICOM-format files to NIfTI-1 format.
Author: Jon Clayden, based on dcm2niix by Chris Rorden
Maintainer: Jon Clayden <code@clayden.org>
Diff between divest versions 0.1.2 dated 2016-12-16 and 0.2.0 dated 2017-01-13
divest-0.1.2/divest/src/print.h |only divest-0.2.0/divest/DESCRIPTION | 8 divest-0.2.0/divest/LICENCE | 2 divest-0.2.0/divest/MD5 | 39 - divest-0.2.0/divest/NAMESPACE | 1 divest-0.2.0/divest/NEWS |only divest-0.2.0/divest/R/read.R | 110 +++- divest-0.2.0/divest/README.md | 72 +- divest-0.2.0/divest/man/readDicom.Rd | 38 + divest-0.2.0/divest/src/ImageList.h | 35 + divest-0.2.0/divest/src/dcm2niix/jpg_0XC3.cpp | 53 +- divest-0.2.0/divest/src/dcm2niix/nifti1_io_core.cpp | 17 divest-0.2.0/divest/src/dcm2niix/nii_dicom.cpp | 499 +++++++++---------- divest-0.2.0/divest/src/dcm2niix/nii_dicom.h | 17 divest-0.2.0/divest/src/dcm2niix/nii_dicom_batch.cpp | 493 ++++++++---------- divest-0.2.0/divest/src/dcm2niix/nii_dicom_batch.h | 13 divest-0.2.0/divest/src/dcm2niix/nii_ortho.cpp | 3 divest-0.2.0/divest/src/dcm2niix/nii_ortho.h | 5 divest-0.2.0/divest/src/dcm2niix/print.h |only divest-0.2.0/divest/src/main.cpp | 85 ++- divest-0.2.0/divest/src/ujpeg/ujpeg.cpp | 9 divest-0.2.0/divest/tests/testthat/test-05-read.R | 9 22 files changed, 887 insertions(+), 621 deletions(-)
Title: Measurement Units for R Vectors
Description: Support for measurement units in R vectors; automatic propagation, conversion, derivation and simplification of units; raising errors in case of unit incompatibility. Compatible with the difftime class. Uses the UNIDATA udunits library and unit database for unit conversion and compatibility checking.
Author: Edzer Pebesma [aut, cre],
Thomas Mailund [aut]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between units versions 0.4-1 dated 2016-12-09 and 0.4-2 dated 2017-01-13
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/conversion.R | 22 +++++++++++++++------- R/misc.R | 4 ++-- R/symbolic_units.R | 30 ++++++++++++++++-------------- inst/doc/measurement_units_in_R.pdf |binary 6 files changed, 41 insertions(+), 31 deletions(-)
Title: Neyman-Pearson Receiver Operating Characteristics
Description: Given a sample of class 0 and class 1 and a classification method, the package generates the corresponding Neyman-Pearson classifier with a pre-specified type-I error control and Neyman-Pearson Receiver Operating Characteristics.
Author: Yang Feng, Jessica Li and Xin Tong
Maintainer: Yang Feng <yang.feng@columbia.edu>
Diff between nproc versions 2.0.1 dated 2016-09-27 and 2.0.4 dated 2017-01-13
ChangeLog | 2 DESCRIPTION | 8 - MD5 | 36 ++++---- R/compare.R | 2 R/lines.nproc.R | 12 +- R/npc.R | 75 +++++++++-------- R/npfuns.R | 203 +++++++++++++++++++++++------------------------ R/nproc.R | 76 +++++++++-------- R/plot.nproc.R | 12 +- R/predict.npc.R | 26 ++---- build/vignette.rds |binary inst/doc/nproc-demo.R | 2 inst/doc/nproc-demo.Rmd | 2 inst/doc/nproc-demo.pdf |binary man/compare.Rd | 2 man/npc.Rd | 20 +--- man/nproc.Rd | 19 ++-- man/predict.npc.Rd | 4 vignettes/nproc-demo.Rmd | 2 19 files changed, 255 insertions(+), 248 deletions(-)
Title: Basic Biological Sequence Analysis
Description: Basic functions for microbial sequence data analysis.
Author: Lars Snipen, Kristian Hovde Liland
Maintainer: Lars Snipen <lars.snipen@nmbu.no>
Diff between microseq versions 1.0 dated 2016-07-26 and 1.2 dated 2017-01-13
microseq-1.0/microseq/man/readFasta-and-writeFasta.Rd |only microseq-1.2/microseq/DESCRIPTION | 17 +- microseq-1.2/microseq/MD5 | 44 ++++- microseq-1.2/microseq/NAMESPACE | 15 +- microseq-1.2/microseq/R/RcppExports.R |only microseq-1.2/microseq/R/dnaManipulate.R | 32 ++-- microseq-1.2/microseq/R/fasta.R | 53 ++----- microseq-1.2/microseq/R/fastq.R | 133 ++++++++++++++---- microseq-1.2/microseq/R/multialign.R | 4 microseq-1.2/microseq/R/primers.R | 35 ++++ microseq-1.2/microseq/build |only microseq-1.2/microseq/inst/doc |only microseq-1.2/microseq/man/cmalign.Rd | 2 microseq-1.2/microseq/man/iupac2regex.Rd |only microseq-1.2/microseq/man/muscle.Rd | 2 microseq-1.2/microseq/man/plot.Fasta.Rd | 5 microseq-1.2/microseq/man/plot.Fastq.Rd |only microseq-1.2/microseq/man/readFasta.Rd |only microseq-1.2/microseq/man/readFastq.Rd | 45 ++++-- microseq-1.2/microseq/man/reverseComplement.Rd | 5 microseq-1.2/microseq/man/translate.Rd | 1 microseq-1.2/microseq/src |only microseq-1.2/microseq/vignettes |only 23 files changed, 271 insertions(+), 122 deletions(-)
Title: Kaplan-Meier Multiple Imputation for the Analysis of Cumulative
Incidence Functions in the Competing Risks Setting
Description: The kmi package performs a Kaplan-Meier multiple imputation to recover the missing potential censoring information from competing risks events, so that standard right-censored methods could be applied to the imputed data sets to perform analyses of the cumulative incidence functions.
Author: Arthur Allignol <arthur.allignol@uni-ulm.de>
Maintainer: Arthur Allignol <arthur.allignol@uni-ulm.de>
Diff between kmi versions 0.5.1 dated 2014-09-04 and 0.5.2 dated 2017-01-13
ChangeLog | 7 +++++++ DESCRIPTION | 18 +++++++++--------- MD5 | 14 +++++++------- NAMESPACE | 2 ++ man/cox.kmi.Rd | 44 ++++++++++++++++++++++++-------------------- man/kmi.Rd | 34 +++++++++++++++++++--------------- tests/test.kmi.R | 1 + tests/test.kmi.Rout.save | 18 +++++++++--------- 8 files changed, 78 insertions(+), 60 deletions(-)
More information about GeneClusterNet at CRAN
Permanent link
Title: Adaptive Mixture of Student-t Distributions
Description: Provides functions to perform the fitting of an adaptive mixture
of Student-t distributions to a target density through its kernel function as described in
Ardia et al. (2009) <doi:10.18637/jss.v029.i03>. The
mixture approximation can then be used as the importance density in importance
sampling or as the candidate density in the Metropolis-Hastings algorithm to
obtain quantities of interest for the target density itself.
Author: David Ardia [aut, cre],
Lennart Hoogerheide [ctb],
Herman van Dijk [ctb]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between AdMit versions 2.0.1 dated 2014-01-07 and 2.1.1 dated 2017-01-13
AdMit-2.0.1/AdMit/README |only AdMit-2.0.1/AdMit/inst/doc/ArticleJSS.txt |only AdMit-2.0.1/AdMit/inst/doc/ArticleRJournal.txt |only AdMit-2.1.1/AdMit/COPYING | 680 ++++++++++++------------- AdMit-2.1.1/AdMit/DESCRIPTION | 33 - AdMit-2.1.1/AdMit/MD5 | 71 +- AdMit-2.1.1/AdMit/NAMESPACE | 5 AdMit-2.1.1/AdMit/NEWS | 157 +++-- AdMit-2.1.1/AdMit/R/AdMitIS.R | 114 ++-- AdMit-2.1.1/AdMit/R/AdMitMH.R | 5 AdMit-2.1.1/AdMit/R/fn.CV.R | 28 - AdMit-2.1.1/AdMit/R/fn.computeexpw.R | 30 - AdMit-2.1.1/AdMit/R/fn.dmvt.R | 32 - AdMit-2.1.1/AdMit/R/fn.isPD.R | 22 AdMit-2.1.1/AdMit/R/fn.isSingular.R | 26 AdMit-2.1.1/AdMit/R/fn.muSigma.R | 46 - AdMit-2.1.1/AdMit/R/fn.optimmu.R | 134 ++-- AdMit-2.1.1/AdMit/R/fn.optimp.R | 171 +++--- AdMit-2.1.1/AdMit/R/fn.rmvt.R | 30 - AdMit-2.1.1/AdMit/R/fn.w.R | 52 - AdMit-2.1.1/AdMit/R/fn.wIS.R | 78 +- AdMit-2.1.1/AdMit/R/fn.wRes.R | 110 ++-- AdMit-2.1.1/AdMit/README.md |only AdMit-2.1.1/AdMit/THANKS | 14 AdMit-2.1.1/AdMit/build/partial.rdb |only AdMit-2.1.1/AdMit/build/vignette.rds |binary AdMit-2.1.1/AdMit/inst/CITATION | 10 AdMit-2.1.1/AdMit/inst/COPYRIGHTS | 20 AdMit-2.1.1/AdMit/inst/doc/AdMit.R | 34 - AdMit-2.1.1/AdMit/inst/doc/AdMit.Rnw | 25 AdMit-2.1.1/AdMit/inst/doc/AdMit.pdf |binary AdMit-2.1.1/AdMit/man/AdMit.Rd | 12 AdMit-2.1.1/AdMit/man/AdMitIS.Rd | 9 AdMit-2.1.1/AdMit/man/AdMitMH.Rd | 7 AdMit-2.1.1/AdMit/man/Mit.Rd | 9 AdMit-2.1.1/AdMit/src/fnKernelMixtureArch_C.c | 1 AdMit-2.1.1/AdMit/src/fnMH_C.c | 2 AdMit-2.1.1/AdMit/src/fnlnf_C.c | 2 AdMit-2.1.1/AdMit/vignettes/AdMit.Rnw | 25 39 files changed, 991 insertions(+), 1003 deletions(-)
Title: Hybrid Bayesian Networks Using R and JAGS
Description: Facilities for easy implementation of hybrid Bayesian networks
using R. Bayesian networks are directed acyclic graphs representing joint
probability distributions, where each node represents a random variable and
each edge represents conditionality. The full joint distribution is therefore
factorized as a product of conditional densities, where each node is assumed
to be independent of its non-descendents given information on its parent nodes.
Since exact, closed-form algorithms are computationally burdensome for inference
within hybrid networks that contain a combination of continuous and discrete
nodes, particle-based approximation techniques like Markov Chain Monte Carlo
are popular. We provide a user-friendly interface to constructing these networks
and running inference using the 'rjags' package. Econometric analyses (maximum
expected utility under competing policies, value of information) involving
decision and utility nodes are also supported.
Author: Jarrod E. Dalton <daltonj@ccf.org> and Benjamin Nutter
<benjamin.nutter@gmail.com>
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>
Diff between HydeNet versions 0.10.4 dated 2016-07-08 and 0.10.5 dated 2017-01-13
DESCRIPTION | 14 +- MD5 | 52 +++++----- NAMESPACE | 9 - NEWS | 3 R/HydePosterior.R | 2 R/HydeUtilities.R | 114 +++++++++++++++-------- R/chain.R | 14 ++ R/compileJagsModel.R | 2 R/plot.HydeNetwork.R | 62 ++++++------ R/writeJagsFormula.R | 158 +++++++++++--------------------- R/writeJagsModel.R | 17 ++- build/vignette.rds |binary inst/doc/DecisionNetworks.html | 144 ++++++++++++++--------------- inst/doc/GettingStartedWithHydeNet.Rmd | 2 inst/doc/GettingStartedWithHydeNet.html | 74 +++++++------- inst/doc/HydeNetPlots.R | 11 ++ inst/doc/HydeNetPlots.Rmd | 14 ++ inst/doc/HydeNetPlots.html | 6 - inst/doc/WorkingWithHydeNetObjects.html | 28 ++--- man/HydeUtilities.Rd | 11 +- man/chain.Rd | 8 + man/compileJagsModel.Rd | 1 man/plot.HydeNetwork.Rd | 2 man/writeJagsFormula.Rd | 10 +- tests/testthat/test-writeJagsFormula.R | 2 vignettes/GettingStartedWithHydeNet.Rmd | 2 vignettes/HydeNetPlots.Rmd | 14 ++ 27 files changed, 423 insertions(+), 353 deletions(-)
Title: An R Interface to Brazilian Central Bank and Sidra APIs and the
IPEA Data
Description: Creates an R interface to the Bacen <http://api.bcb.gov.br/> and Sidra <http://api.sidra.ibge.gov.br> APIs
and IPEA data <http://www.ipeadata.gov.br/Default.aspx>.
Author: Fernando Teixeira [aut, cre],
Jonatha Azevedo [aut]
Maintainer: Fernando Teixeira <fernando.teixeira@fgv.br>
Diff between ecoseries versions 0.0.98 dated 2017-01-05 and 0.0.99 dated 2017-01-13
DESCRIPTION | 14 ++++++++------ MD5 | 14 ++++++++------ NAMESPACE | 2 ++ R/ecoseries.R | 7 +++++-- R/series_bacen.R | 4 ++++ R/series_sidra.R |only README.md | 4 ++-- man/ecoseries.Rd | 7 ++++++- man/series_sidra.Rd |only 9 files changed, 35 insertions(+), 17 deletions(-)
Title: Efficiently Read Sequence Data (VCF Format, BCF Format and METAL
Format) into R
Description: Integrate sequencing data (Variant call format, e.g. VCF or BCF) or meta-analysis results in R.
Author: Xiaowei Zhan [aut, cre],
Dajiang Liu [aut],
Attractive Chaos [cph] (We have used the following software and made
minimal necessary changes: Tabix, Heng Li <lh3@live.co.uk> (MIT
license). We removed standard IO related functions, e.g. printf,
fprintf ; also changed its un-safe pointer arithmetics.),
Broad Institute / Massachusetts Institute of Technology [cph],
Genome Research Ltd (GRL) [cph]
Maintainer: Xiaowei Zhan <zhanxw@gmail.com>
Diff between seqminer versions 5.3 dated 2016-05-07 and 5.7 dated 2017-01-13
ChangeLog | 17 ++++ DESCRIPTION | 8 +- MD5 | 28 +++---- R/seqminer.R | 8 +- src/BCFReader.cpp | 8 +- src/IO.h | 18 ++-- src/Makevars.in | 12 ++- src/PlinkInputFile.cpp | 8 +- src/Profiler.h | 6 - src/R_CPP_interface.cpp | 2 src/RangeList.h | 6 - src/StringUtil.h | 8 +- src/VCFIndividual.h | 3 src/VCFInputFile.h | 8 +- src/rvMetaLoader.cpp | 187 ++++++++++++++++++++++++++++++++++++++---------- 15 files changed, 231 insertions(+), 96 deletions(-)
Title: Estimation and Inference of Two-Way pAUC, pAUC and pODC
Description: Tools for estimating and inferring two-way partial area under receiver operating characteristic curves (two-way pAUC), partial area under receiver operating characteristic curves (pAUC), and partial area under ordinal dominance curves (pODC). Methods includes Mann-Whitney statistic and Jackknife, etc. Plots of regions under corresponding curves can also be generated.
Author: Hanfang Yang, Kun Lu, Xiang Lyu, Feifang Hu, Yichuan Zhao
Maintainer: Xiang Lyu <lyu17@purdue.edu>
Diff between tpAUC versions 1.0.1 dated 2016-08-29 and 2.0.1 dated 2017-01-13
DESCRIPTION | 10 +- MD5 | 42 +++++------ R/podc.R | 2 R/podc.ci.R | 2 R/podc.est.R | 2 R/proc.R | 2 R/proc.ci.R | 2 R/proc.est.R | 2 R/tpAUC-package.r | 2 R/tproc.est.R | 2 build/vignette.rds |binary inst/doc/tpAUCguide.Rmd | 2 inst/doc/tpAUCguide.html | 169 +++++++++++++++++++++++++---------------------- man/podc.Rd | 2 man/podc.ci.Rd | 2 man/podc.est.Rd | 2 man/proc.Rd | 2 man/proc.ci.Rd | 2 man/proc.est.Rd | 2 man/tpAUC.Rd | 2 man/tproc.est.Rd | 2 vignettes/tpAUCguide.Rmd | 2 22 files changed, 137 insertions(+), 120 deletions(-)
Title: Load WARC Files into Apache Spark
Description: Load WARC (Web ARChive) files into Apache Spark using 'sparklyr'. This
allows to read files from the Common Crawl project <http://commoncrawl.org/>.
Author: Javier Luraschi [aut, cre]
Maintainer: Javier Luraschi <javier@rstudio.com>
Diff between sparkwarc versions 0.1.0 dated 2017-01-10 and 0.1.1 dated 2017-01-13
DESCRIPTION | 6 ++-- MD5 | 16 ++++++------ R/sparkwarc.R | 11 +++----- README.md | 52 ++++++++++++++++++++++++++++++++++++++- inst/java/sparkwarc-1.5-2.10.jar |binary inst/java/sparkwarc-1.6-2.10.jar |binary inst/java/sparkwarc-2.0-2.11.jar |binary java/SparkWARC.scala | 42 ++++++++++++++++++++++++++++++- man/spark_read_warc.Rd | 4 ++- 9 files changed, 110 insertions(+), 21 deletions(-)
Title: Fast Estimation of Gaussian Mixture Copula Models
Description: Unsupervised Clustering and Meta-analysis using Gaussian Mixture
Copula Models.
Author: Anders Ellern Bilgrau, Martin Boegsted, Poul Svante Eriksen
Maintainer: Anders Ellern Bilgrau <anders.ellern.bilgrau@gmail.com>
Diff between GMCM versions 1.2.3 dated 2016-03-29 and 1.2.4 dated 2017-01-13
DESCRIPTION | 6 +- MD5 | 39 +++++++++---------- R/GMCM-package.R | 13 +++--- R/fit.full.GMCM.R | 21 +++++----- R/fit.meta.GMCM.R | 9 ++-- R/meta2full.R | 9 +--- README.md | 49 +++++++++++++++++------- inst/CITATION | 2 inst/NEWS.Rd | 11 ++++- inst/doc/GMCM-JStatSoft.R | 7 +-- inst/doc/GMCM-JStatSoft.Rnw | 17 ++------ inst/doc/GMCM-JStatSoft.pdf |binary man/GMCM-package.Rd | 11 ++--- man/fit.full.GMCM.Rd | 21 +++++----- man/fit.meta.GMCM.Rd | 9 ++-- man/full2meta.Rd | 2 tests/testthat/test-get.idr-get.prob-get.IDR2.R | 2 vignettes/GMCM-JStatSoft.Rnw | 17 ++------ vignettes/GMCM-Standalone.R | 7 +-- vignettes/References.bib | 12 ++--- vignettes/STS-27.jpg |only 21 files changed, 147 insertions(+), 117 deletions(-)