Title: The 'jamovi' Analyses
Description: A suite of common statistical methods such as descriptives,
t-tests, ANOVAs, correlation matrices, proportion tests, contingency tables,
and factor analysis. This package is also useable from the 'jamovi'
statistical spreadsheet (see <https://www.jamovi.org> for more information).
Author: Ravi Selker, Jonathon Love, Damian Dropmann
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmv versions 0.8 dated 2017-09-15 and 0.8.1.11 dated 2017-12-07
jmv-0.8.1.11/jmv/DESCRIPTION | 10 jmv-0.8.1.11/jmv/MD5 | 105 ++++----- jmv-0.8.1.11/jmv/NAMESPACE | 1 jmv-0.8.1.11/jmv/R/ancova.b.R | 15 - jmv-0.8.1.11/jmv/R/ancova.h.R | 150 +++++------- jmv-0.8.1.11/jmv/R/anova.h.R | 150 +++++------- jmv-0.8.1.11/jmv/R/anovanp.b.R | 2 jmv-0.8.1.11/jmv/R/anovanp.h.R | 34 +- jmv-0.8.1.11/jmv/R/anovarm.b.R | 39 +-- jmv-0.8.1.11/jmv/R/anovarm.h.R | 174 ++++++--------- jmv-0.8.1.11/jmv/R/anovarmnp.b.R | 2 jmv-0.8.1.11/jmv/R/anovarmnp.h.R | 52 +--- jmv-0.8.1.11/jmv/R/cfa.h.R | 230 ++++++++----------- jmv-0.8.1.11/jmv/R/conttables.b.R | 75 +++++- jmv-0.8.1.11/jmv/R/conttables.h.R | 240 +++++++++++++------- jmv-0.8.1.11/jmv/R/conttablespaired.h.R | 56 ++-- jmv-0.8.1.11/jmv/R/corrmatrix.h.R | 76 +++--- jmv-0.8.1.11/jmv/R/descriptives.b.R | 66 ++++- jmv-0.8.1.11/jmv/R/descriptives.h.R | 114 ++++----- jmv-0.8.1.11/jmv/R/efa.h.R | 64 ++--- jmv-0.8.1.11/jmv/R/linreg.h.R | 180 ++++++--------- jmv-0.8.1.11/jmv/R/mancova.b.R | 4 jmv-0.8.1.11/jmv/R/mancova.h.R | 82 +++---- jmv-0.8.1.11/jmv/R/pca.h.R | 150 +++++------- jmv-0.8.1.11/jmv/R/proptest2.b.R | 358 ++++++++++++++++++++++++------- jmv-0.8.1.11/jmv/R/proptest2.h.R | 170 ++++++++++++-- jmv-0.8.1.11/jmv/R/proptestn.h.R | 38 +-- jmv-0.8.1.11/jmv/R/reliability.h.R | 78 +++--- jmv-0.8.1.11/jmv/R/ttestis.b.R | 18 - jmv-0.8.1.11/jmv/R/ttestis.h.R | 129 +++++------ jmv-0.8.1.11/jmv/R/ttestones.h.R | 105 ++++----- jmv-0.8.1.11/jmv/R/ttestps.h.R | 109 ++++----- jmv-0.8.1.11/jmv/man/ancova.Rd | 38 +-- jmv-0.8.1.11/jmv/man/anova.Rd | 38 +-- jmv-0.8.1.11/jmv/man/anovaNP.Rd | 4 jmv-0.8.1.11/jmv/man/anovaRM.Rd | 52 ++-- jmv-0.8.1.11/jmv/man/anovaRMNP.Rd | 8 jmv-0.8.1.11/jmv/man/cfa.Rd | 52 ++-- jmv-0.8.1.11/jmv/man/contTables.Rd | 47 ++-- jmv-0.8.1.11/jmv/man/contTablesPaired.Rd | 12 - jmv-0.8.1.11/jmv/man/corrMatrix.Rd | 24 +- jmv-0.8.1.11/jmv/man/descriptives.Rd | 24 +- jmv-0.8.1.11/jmv/man/efa.Rd | 20 - jmv-0.8.1.11/jmv/man/linReg.Rd | 40 +-- jmv-0.8.1.11/jmv/man/mancova.Rd | 12 - jmv-0.8.1.11/jmv/man/pca.Rd | 20 - jmv-0.8.1.11/jmv/man/propTest2.Rd | 30 ++ jmv-0.8.1.11/jmv/man/propTestN.Rd | 4 jmv-0.8.1.11/jmv/man/reliability.Rd | 20 - jmv-0.8.1.11/jmv/man/ttestIS.Rd | 36 +-- jmv-0.8.1.11/jmv/man/ttestOneS.Rd | 32 +- jmv-0.8.1.11/jmv/man/ttestPS.Rd | 36 +-- jmv-0.8/jmv/R/loglinear.b.R |only jmv-0.8/jmv/R/loglinear.h.R |only jmv-0.8/jmv/man/logLinear.Rd |only 55 files changed, 1983 insertions(+), 1642 deletions(-)
Title: Manipulate and Visualize VCF Data
Description: Facilitates easy manipulation of variant call format (VCF) data.
Functions are provided to rapidly read from and write to VCF files. Once
VCF data is read into R a parser function extracts matrices of data. This
information can then be used for quality control or other purposes. Additional
functions provide visualization of genomic data. Once processing is complete
data may be written to a VCF file (*.vcf.gz). It also may be converted into
other popular R objects (e.g., genlight, DNAbin). VcfR provides a link between
VCF data and familiar R software.
Author: Brian J. Knaus [cre, aut] (0000-0003-1665-4343),
Niklaus J. Grunwald [aut] (0000-0003-1656-7602),
Eric C. Anderson [ctb],
David J. Winter [ctb],
Zhian N. Kamvar [ctb] (0000-0003-1458-7108),
Javier F. Tabima [ctb] (0000-0002-3603-2691)
Maintainer: Brian J. Knaus <briank.lists@gmail.com>
Diff between vcfR versions 1.5.0 dated 2017-05-18 and 1.6.0 dated 2017-12-07
vcfR-1.5.0/vcfR/inst/doc/filtering_data.R |only vcfR-1.5.0/vcfR/inst/doc/filtering_data.Rmd |only vcfR-1.5.0/vcfR/inst/doc/filtering_data.html |only vcfR-1.5.0/vcfR/inst/doc/ranking_data.R |only vcfR-1.5.0/vcfR/inst/doc/ranking_data.Rmd |only vcfR-1.5.0/vcfR/inst/doc/ranking_data.html |only vcfR-1.5.0/vcfR/inst/doc/sequence_coverage.R |only vcfR-1.5.0/vcfR/inst/doc/sequence_coverage.Rmd |only vcfR-1.5.0/vcfR/inst/doc/sequence_coverage.html |only vcfR-1.5.0/vcfR/inst/doc/visualization_1.R |only vcfR-1.5.0/vcfR/inst/doc/visualization_1.Rmd |only vcfR-1.5.0/vcfR/inst/doc/visualization_1.html |only vcfR-1.5.0/vcfR/inst/doc/visualization_2.R |only vcfR-1.5.0/vcfR/inst/doc/visualization_2.Rmd |only vcfR-1.5.0/vcfR/inst/doc/visualization_2.html |only vcfR-1.5.0/vcfR/src/extractGT2NM.cpp |only vcfR-1.5.0/vcfR/src/init.c |only vcfR-1.5.0/vcfR/src/vcf_io.cpp |only vcfR-1.5.0/vcfR/tests/testthat/test_10_write_vcf.R |only vcfR-1.5.0/vcfR/tests/testthat/test_1_vcf.R |only vcfR-1.5.0/vcfR/tests/testthat/test_2_chromR.R |only vcfR-1.5.0/vcfR/tests/testthat/test_3_extract_gt.R |only vcfR-1.5.0/vcfR/tests/testthat/test_4_vcfR2DNAbin.R |only vcfR-1.5.0/vcfR/tests/testthat/test_chromoqc.R |only vcfR-1.5.0/vcfR/tests/testthat/test_io.R |only vcfR-1.5.0/vcfR/tests/testthat/test_vcfR_methods.R |only vcfR-1.5.0/vcfR/vignettes/filtering_data.Rmd |only vcfR-1.5.0/vcfR/vignettes/ranking_data.Rmd |only vcfR-1.5.0/vcfR/vignettes/sequence_coverage.Rmd |only vcfR-1.5.0/vcfR/vignettes/visualization_1.Rmd |only vcfR-1.5.0/vcfR/vignettes/visualization_2.Rmd |only vcfR-1.6.0/vcfR/DESCRIPTION | 29 - vcfR-1.6.0/vcfR/MD5 | 199 +++++------ vcfR-1.6.0/vcfR/NAMESPACE | 25 + vcfR-1.6.0/vcfR/R/RcppExports.R | 139 +++++--- vcfR-1.6.0/vcfR/R/chromR-method.R | 33 + vcfR-1.6.0/vcfR/R/chromR_example.R |only vcfR-1.6.0/vcfR/R/extract_gt.R | 61 ++- vcfR-1.6.0/vcfR/R/fasta_output.R | 14 vcfR-1.6.0/vcfR/R/freq_peak_plot.R |only vcfR-1.6.0/vcfR/R/genetic_diff.R | 20 - vcfR-1.6.0/vcfR/R/get_methods.R | 3 vcfR-1.6.0/vcfR/R/io_vcfR.R | 71 +++- vcfR-1.6.0/vcfR/R/pairwise_genetic_diff.R |only vcfR-1.6.0/vcfR/R/peak_to_ploid.R |only vcfR-1.6.0/vcfR/R/pipe.R |only vcfR-1.6.0/vcfR/R/proc_chromR.R | 58 +-- vcfR-1.6.0/vcfR/R/ranking.R | 11 vcfR-1.6.0/vcfR/R/rePOS.R |only vcfR-1.6.0/vcfR/R/sandbox.R | 13 vcfR-1.6.0/vcfR/R/vcfR-method.R | 11 vcfR-1.6.0/vcfR/R/vcfR.R | 14 vcfR-1.6.0/vcfR/R/vcfR2DNAbin.R | 70 +++- vcfR-1.6.0/vcfR/R/vcfR2migrate.R |only vcfR-1.6.0/vcfR/R/vcfR_conversion.R | 12 vcfR-1.6.0/vcfR/R/vcfR_to_tidy_functions.R | 24 - vcfR-1.6.0/vcfR/R/windowing.R | 21 - vcfR-1.6.0/vcfR/README.md | 9 vcfR-1.6.0/vcfR/build/vignette.rds |binary vcfR-1.6.0/vcfR/data/chromR_example.RData |only vcfR-1.6.0/vcfR/inst/doc/converting_data.Rmd | 2 vcfR-1.6.0/vcfR/inst/doc/converting_data.html | 259 +++++---------- vcfR-1.6.0/vcfR/inst/doc/intro_to_vcfR.Rmd | 3 vcfR-1.6.0/vcfR/inst/doc/intro_to_vcfR.html | 19 - vcfR-1.6.0/vcfR/inst/doc/vcf_data.html | 8 vcfR-1.6.0/vcfR/inst/doc/workflow.html | 4 vcfR-1.6.0/vcfR/man/chromR-method.Rd | 6 vcfR-1.6.0/vcfR/man/chromR_example.Rd |only vcfR-1.6.0/vcfR/man/extract_gt.Rd | 7 vcfR-1.6.0/vcfR/man/fasta_output.Rd | 4 vcfR-1.6.0/vcfR/man/freq_peak.Rd | 12 vcfR-1.6.0/vcfR/man/freq_peak_plot.Rd |only vcfR-1.6.0/vcfR/man/genetic_diff.Rd | 8 vcfR-1.6.0/vcfR/man/getFIX.Rd | 2 vcfR-1.6.0/vcfR/man/io_vcfR.Rd | 4 vcfR-1.6.0/vcfR/man/masplit.Rd | 11 vcfR-1.6.0/vcfR/man/pairwise_genetic_diff.Rd |only vcfR-1.6.0/vcfR/man/peak_to_ploid.Rd |only vcfR-1.6.0/vcfR/man/pipe.Rd | 2 vcfR-1.6.0/vcfR/man/rePOS.Rd |only vcfR-1.6.0/vcfR/man/vcfR-method.Rd | 1 vcfR-1.6.0/vcfR/man/vcfR.Rd | 11 vcfR-1.6.0/vcfR/man/vcfR2DNAbin.Rd | 19 - vcfR-1.6.0/vcfR/man/vcfR2migrate.Rd |only vcfR-1.6.0/vcfR/man/vcfR_conversion.Rd | 12 vcfR-1.6.0/vcfR/man/vcfR_to_tidy_conversion.Rd | 6 vcfR-1.6.0/vcfR/man/windowing.Rd | 6 vcfR-1.6.0/vcfR/src/NM2winNM.cpp | 28 + vcfR-1.6.0/vcfR/src/RcppExports.cpp | 223 +++++++----- vcfR-1.6.0/vcfR/src/deprecated_funcs.cpp |only vcfR-1.6.0/vcfR/src/extract_gt.cpp |only vcfR-1.6.0/vcfR/src/freq_peak.cpp | 76 ++-- vcfR-1.6.0/vcfR/src/gt_to_popsum.cpp | 4 vcfR-1.6.0/vcfR/src/masplit.cpp | 14 vcfR-1.6.0/vcfR/src/rank_variants.cpp | 4 vcfR-1.6.0/vcfR/src/read_vcfR.cpp |only vcfR-1.6.0/vcfR/src/seq_to_rects.cpp | 4 vcfR-1.6.0/vcfR/src/var_window.cpp | 13 vcfR-1.6.0/vcfR/src/vcfRCommon.cpp | 7 vcfR-1.6.0/vcfR/src/vcfRCommon.h | 5 vcfR-1.6.0/vcfR/src/write_vcfR.cpp |only vcfR-1.6.0/vcfR/tests/testthat.R | 67 +-- vcfR-1.6.0/vcfR/tests/testthat/test_010_vcfR.R |only vcfR-1.6.0/vcfR/tests/testthat/test_011_vcfR_methods.R |only vcfR-1.6.0/vcfR/tests/testthat/test_012_write_vcfR_cpp.R |only vcfR-1.6.0/vcfR/tests/testthat/test_013_read_vcfR_cpp.R |only vcfR-1.6.0/vcfR/tests/testthat/test_014_read_vcfR.R |only vcfR-1.6.0/vcfR/tests/testthat/test_015_write_vcfR.R |only vcfR-1.6.0/vcfR/tests/testthat/test_020_chromR.R |only vcfR-1.6.0/vcfR/tests/testthat/test_INFO2df.R |only vcfR-1.6.0/vcfR/tests/testthat/test_ad_frequency.R | 3 vcfR-1.6.0/vcfR/tests/testthat/test_addID.R | 4 vcfR-1.6.0/vcfR/tests/testthat/test_chromR_method.R | 16 vcfR-1.6.0/vcfR/tests/testthat/test_chromo_plot.R | 10 vcfR-1.6.0/vcfR/tests/testthat/test_conversion.R | 48 -- vcfR-1.6.0/vcfR/tests/testthat/test_extract_gt.R |only vcfR-1.6.0/vcfR/tests/testthat/test_freq_peak.R | 2 vcfR-1.6.0/vcfR/tests/testthat/test_genetic_diff.R | 29 + vcfR-1.6.0/vcfR/tests/testthat/test_get.R | 7 vcfR-1.6.0/vcfR/tests/testthat/test_is_het.R | 9 vcfR-1.6.0/vcfR/tests/testthat/test_maf.R | 5 vcfR-1.6.0/vcfR/tests/testthat/test_peak_to_ploid.R |only vcfR-1.6.0/vcfR/tests/testthat/test_proc_chromR.R | 51 ++ vcfR-1.6.0/vcfR/tests/testthat/test_queryMETA.R |only vcfR-1.6.0/vcfR/tests/testthat/test_query_gt.R |only vcfR-1.6.0/vcfR/tests/testthat/test_rank_variants.R | 81 +--- vcfR-1.6.0/vcfR/tests/testthat/test_rePOS.R |only vcfR-1.6.0/vcfR/tests/testthat/test_summary_tables.R |only vcfR-1.6.0/vcfR/tests/testthat/test_var_window.R | 13 vcfR-1.6.0/vcfR/tests/testthat/test_vcfR2DNAbin.R |only vcfR-1.6.0/vcfR/tests/testthat/test_vcfR2migrate.R |only vcfR-1.6.0/vcfR/vignettes/converting_data.Rmd | 2 vcfR-1.6.0/vcfR/vignettes/intro_to_vcfR.Rmd | 3 133 files changed, 1127 insertions(+), 844 deletions(-)
Title: Spatial Analysis and Modelling
Description: Utilities to support spatial data manipulation, query, sampling
and modelling. Functions include models for species population density, download
utilities for climate and global deforestation spatial products, spatial
smoothing, multivariate separability, point process model for creating pseudo-
absences and sub-sampling, polygon and point-distance landscape metrics,
auto-logistic model, sampling models, cluster optimization and statistical
exploratory tools.
Author: Jeffrey S. Evans [aut, cre],
Karthik Ram [ctb]
Maintainer: Jeffrey S. Evans <jeffrey_evans@tnc.org>
Diff between spatialEco versions 0.1-7 dated 2017-04-11 and 1.0-0 dated 2017-12-07
spatialEco-0.1-7/spatialEco/man/hmwCorr.Rd |only spatialEco-0.1-7/spatialEco/man/kde2D.Rd |only spatialEco-1.0-0/spatialEco/DESCRIPTION | 16 - spatialEco-1.0-0/spatialEco/MD5 | 144 +++++++------ spatialEco-1.0-0/spatialEco/NAMESPACE | 13 + spatialEco-1.0-0/spatialEco/R/breeding.density.R | 13 - spatialEco-1.0-0/spatialEco/R/class.comparison.R |only spatialEco-1.0-0/spatialEco/R/concordance.R | 2 spatialEco-1.0-0/spatialEco/R/correlogram.R | 1 spatialEco-1.0-0/spatialEco/R/daymet.point.R | 6 spatialEco-1.0-0/spatialEco/R/dissection.R | 2 spatialEco-1.0-0/spatialEco/R/download.daymet.R | 9 spatialEco-1.0-0/spatialEco/R/download.hansen.R | 2 spatialEco-1.0-0/spatialEco/R/erase.points.R |only spatialEco-1.0-0/spatialEco/R/focal.lmetrics.R |only spatialEco-1.0-0/spatialEco/R/group.pdf.R | 2 spatialEco-1.0-0/spatialEco/R/hexagons.R | 1 spatialEco-1.0-0/spatialEco/R/idw.smoothing.R | 1 spatialEco-1.0-0/spatialEco/R/kde2D.R | 56 ----- spatialEco-1.0-0/spatialEco/R/land.metrics.R | 76 +++++- spatialEco-1.0-0/spatialEco/R/logistic.regression.R | 2 spatialEco-1.0-0/spatialEco/R/mwCorr.R | 163 --------------- spatialEco-1.0-0/spatialEco/R/nni.R | 3 spatialEco-1.0-0/spatialEco/R/o.ring.R | 2 spatialEco-1.0-0/spatialEco/R/oli.aws.R |only spatialEco-1.0-0/spatialEco/R/parea.sample.R | 58 ++--- spatialEco-1.0-0/spatialEco/R/point.in.poly.R | 74 ++++-- spatialEco-1.0-0/spatialEco/R/poly.regression.R |only spatialEco-1.0-0/spatialEco/R/polyPerimeter.R | 1 spatialEco-1.0-0/spatialEco/R/pp.subsample.R | 3 spatialEco-1.0-0/spatialEco/R/pseudo.absence.R | 1 spatialEco-1.0-0/spatialEco/R/raster.Zscore.R | 2 spatialEco-1.0-0/spatialEco/R/raster.deviation.R | 2 spatialEco-1.0-0/spatialEco/R/raster.downscale.R |only spatialEco-1.0-0/spatialEco/R/raster.mds.R | 4 spatialEco-1.0-0/spatialEco/R/raster.modifed.ttest.R |only spatialEco-1.0-0/spatialEco/R/raster.transformations.R | 2 spatialEco-1.0-0/spatialEco/R/sa.trans.R | 8 spatialEco-1.0-0/spatialEco/R/sample.annulus.R | 1 spatialEco-1.0-0/spatialEco/R/sample.line.R | 1 spatialEco-1.0-0/spatialEco/R/sample.poly.R | 1 spatialEco-1.0-0/spatialEco/R/sample.transect.R | 3 spatialEco-1.0-0/spatialEco/R/separability.R | 2 spatialEco-1.0-0/spatialEco/R/shannons.R | 7 spatialEco-1.0-0/spatialEco/R/sp.kde.R |only spatialEco-1.0-0/spatialEco/R/vrm.R | 2 spatialEco-1.0-0/spatialEco/R/winsorize.R |only spatialEco-1.0-0/spatialEco/R/wt.centroids.R | 3 spatialEco-1.0-0/spatialEco/R/zonal.stats.R | 1 spatialEco-1.0-0/spatialEco/inst/NEWS | 15 + spatialEco-1.0-0/spatialEco/man/breeding.density.Rd | 17 - spatialEco-1.0-0/spatialEco/man/class.comparison.Rd |only spatialEco-1.0-0/spatialEco/man/concordance.Rd | 2 spatialEco-1.0-0/spatialEco/man/daymet.point.Rd | 2 spatialEco-1.0-0/spatialEco/man/dissection.Rd | 2 spatialEco-1.0-0/spatialEco/man/download.hansen.Rd | 2 spatialEco-1.0-0/spatialEco/man/erase.point.Rd |only spatialEco-1.0-0/spatialEco/man/focal.lmetrics.Rd |only spatialEco-1.0-0/spatialEco/man/group.pdf.Rd | 2 spatialEco-1.0-0/spatialEco/man/kde.2D.Rd |only spatialEco-1.0-0/spatialEco/man/land.metrics.Rd | 69 ++++-- spatialEco-1.0-0/spatialEco/man/logistic.regression.Rd | 2 spatialEco-1.0-0/spatialEco/man/mwCorr.Rd |only spatialEco-1.0-0/spatialEco/man/nni.Rd | 2 spatialEco-1.0-0/spatialEco/man/o.ring.Rd | 2 spatialEco-1.0-0/spatialEco/man/oli.asw.Rd |only spatialEco-1.0-0/spatialEco/man/parea.sample.Rd | 2 spatialEco-1.0-0/spatialEco/man/point.in.poly.Rd | 44 ++-- spatialEco-1.0-0/spatialEco/man/poly.regression.Rd |only spatialEco-1.0-0/spatialEco/man/pp.subsample.Rd | 2 spatialEco-1.0-0/spatialEco/man/raster.Zscore.Rd | 2 spatialEco-1.0-0/spatialEco/man/raster.deviation.Rd | 2 spatialEco-1.0-0/spatialEco/man/raster.downscale.Rd |only spatialEco-1.0-0/spatialEco/man/raster.mds.Rd | 2 spatialEco-1.0-0/spatialEco/man/raster.modifed.ttest.Rd |only spatialEco-1.0-0/spatialEco/man/raster.transformation.Rd | 2 spatialEco-1.0-0/spatialEco/man/sa.trans.Rd | 8 spatialEco-1.0-0/spatialEco/man/sampleTransect.Rd | 2 spatialEco-1.0-0/spatialEco/man/separability.Rd | 2 spatialEco-1.0-0/spatialEco/man/shannons.Rd | 2 spatialEco-1.0-0/spatialEco/man/sp.kde.Rd |only spatialEco-1.0-0/spatialEco/man/vrm.Rd | 2 spatialEco-1.0-0/spatialEco/man/winsorize.Rd |only spatialEco-1.0-0/spatialEco/man/wt.centroid.Rd | 2 84 files changed, 419 insertions(+), 462 deletions(-)
Title: Simulating the Evolution of Biological Sequences
Description: A coalescent simulator that allows the rapid simulation of
biological sequences under neutral models of evolution. Different to other
coalescent based simulations, it has an optional approximation parameter that
allows for high accuracy while maintaining a linear run time cost for long
sequences. It is optimized for simulating massive data sets as produced by Next-
Generation Sequencing technologies for up to several thousand sequences.
Author: Paul Staab [aut, cre, cph],
Zhu Sha [aut, cph],
Dirk Metzler [aut, cph, ths],
Gerton Lunter [aut, cph, ths]
Maintainer: Paul Staab <develop@paulstaab.de>
Diff between scrm versions 1.7.2-0 dated 2016-12-11 and 1.7.2-1 dated 2017-12-07
DESCRIPTION | 8 - MD5 | 32 +++--- NEWS | 7 + R/RcppExports.R | 16 +-- R/scrm.R | 2 build/vignette.rds |binary inst/doc/scrm-Arguments.Rmd | 218 ++++++++++++++++++++--------------------- inst/doc/scrm-Arguments.html | 8 - inst/doc/scrm-TreesForApe.R | 4 inst/doc/scrm-TreesForApe.Rmd | 4 inst/doc/scrm-TreesForApe.html | 22 ++-- man/scrm-package.Rd | 17 +-- man/scrm.Rd | 10 - src/RcppExports.cpp | 21 +++ src/scrmr.cpp | 8 - vignettes/scrm-Arguments.Rmd | 218 ++++++++++++++++++++--------------------- vignettes/scrm-TreesForApe.Rmd | 4 17 files changed, 316 insertions(+), 283 deletions(-)
Title: Functions for University of Auckland Course STATS 201/208 Data
Analysis
Description: A set of functions used in teaching STATS 201/208 Data Analysis at
the University of Auckland. The functions are designed to make parts of R more
accessible to a large undergraduate population who are mostly not statistics
majors.
Author: Andrew Balemi, Dineika Chandra, James Curran, Brant Deppa, Mike Forster,
Brendan McArdle, Ben Stevenson, Chris Wild
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between s20x versions 3.1-25 dated 2017-11-23 and 3.1-26 dated 2017-12-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/cooks20x.R | 2 +- R/modcheck.R | 1 + man/cooks20x.Rd | 2 +- 5 files changed, 11 insertions(+), 10 deletions(-)
Title: Response Probability Functions
Description: The purpose of this package is to factor out logic and math common
to Item Factor Analysis fitting, diagnostics, and analysis. It is
envisioned as core support code suitable for more specialized IRT packages
to build upon. Complete access to optimized C functions are made available
with R_RegisterCCallable().
Author: Joshua Pritikin [cre, aut],
Jonathan Weeks [ctb],
Li Cai [ctb],
Carrie Houts [ctb],
Phil Chalmers [ctb],
Michael D. Hunter [ctb],
Carl F. Falk [ctb]
Maintainer: Joshua Pritikin <jpritikin@pobox.com>
Diff between rpf versions 0.55 dated 2017-10-11 and 0.56 dated 2017-12-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- inst/doc/diagnostics.html | 42 +++++++++++++++++++++--------------------- src/Makevars | 4 ++++ src/ba81quad.h | 2 +- 5 files changed, 34 insertions(+), 30 deletions(-)
Title: Generate Attractive Random Colors
Description: Simple methods to generate attractive random colors. The random
colors are from a wrapper of 'randomColor.js'
<https://github.com/davidmerfield/randomColor>. In addition, it also generates
optimally distinct colors based on k-means (inspired by 'IWantHue'
<https://github.com/medialab/iwanthue>).
Author: Ron Ammar
Maintainer: Ron Ammar <ron.ammar@gmail.com>
Diff between randomcoloR versions 1.0.0 dated 2016-03-29 and 1.1.0 dated 2017-12-07
randomcoloR-1.0.0/randomcoloR/README.md |only randomcoloR-1.1.0/randomcoloR/DESCRIPTION | 14 + randomcoloR-1.1.0/randomcoloR/MD5 | 14 - randomcoloR-1.1.0/randomcoloR/NAMESPACE | 4 randomcoloR-1.1.0/randomcoloR/NEWS |only randomcoloR-1.1.0/randomcoloR/R/onLoad.R | 11 + randomcoloR-1.1.0/randomcoloR/R/randomcolor.R | 111 ++++++++------ randomcoloR-1.1.0/randomcoloR/man/distinctColorPalette.Rd | 7 randomcoloR-1.1.0/randomcoloR/man/randomColor.Rd | 1 9 files changed, 100 insertions(+), 62 deletions(-)
Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to Schafer's package 'pan', 'jomo' is a package for multilevel joint modelling multiple imputation.
Novel aspects of 'jomo' are the possibility of handling binary and categorical data through latent normal variables, the option to use cluster-specific covariance matrices and to impute compatibly with the substantive model.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <matteo.quartagno@lshtm.ac.uk>
Diff between jomo versions 2.5-1 dated 2017-10-18 and 2.5-2 dated 2017-12-07
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/jomo.coxph.MCMCchain.R | 2 +- R/jomo.coxph.R | 2 +- R/jomo.glm.MCMCchain.R | 2 +- R/jomo.glm.R | 2 +- R/jomo.glmer.MCMCchain.R | 2 +- R/jomo.glmer.R | 2 +- R/jomo.lm.MCMCchain.R | 2 +- R/jomo.lm.R | 2 +- R/jomo.lmer.MCMCchain.R | 2 +- R/jomo.lmer.R | 2 +- man/jomo1ranconhr.Rd | 2 +- 13 files changed, 27 insertions(+), 27 deletions(-)
Title: Quantile Comparison for Two-Sample Right-Censored Survival Data
Description: Nonparametric two-sample procedure for comparing survival quantiles.
Author: Eric S. Kawaguchi [aut, cre]
Maintainer: Eric S. Kawaguchi <erickawaguchi@ucla.edu>
Diff between controlTest versions 1.0 dated 2015-06-17 and 1.1.0 dated 2017-12-07
controlTest-1.0/controlTest/R/control_median_test.R |only controlTest-1.0/controlTest/man/controlTest-package.Rd |only controlTest-1.0/controlTest/man/control_median_test.Rd |only controlTest-1.1.0/controlTest/DESCRIPTION | 23 +++++++-------- controlTest-1.1.0/controlTest/MD5 | 12 ++++--- controlTest-1.1.0/controlTest/NAMESPACE | 14 +++++++-- controlTest-1.1.0/controlTest/R/quantileControlTest.R |only controlTest-1.1.0/controlTest/R/quantileSE.R |only controlTest-1.1.0/controlTest/README.md |only controlTest-1.1.0/controlTest/man/quantileControlTest.Rd |only controlTest-1.1.0/controlTest/man/quantileSE.Rd |only 11 files changed, 31 insertions(+), 18 deletions(-)
Title: Bureau of Economic Analysis API
Description: Provides an R interface for the Bureau of Economic Analysis (BEA)
API (see <http://www.bea.gov/API/bea_web_service_api_user_guide.htm> for
more information) that serves two core purposes -
1. To Extract/Transform/Load data [beaGet()] from the BEA API as R-friendly
formats in the user's work space [transformation done by default in beaGet()
can be modified using optional parameters; see, too, bea2List(), bea2Tab()].
2. To enable the search of descriptive meta data [beaSearch()].
Other features of the library exist mainly as intermediate methods
or are in early stages of development.
Important Note - You must have an API key to use this library.
Register for a key at <http://www.bea.gov/API/signup/index.cfm> .
Author: Andrea Batch [aut, cre],
Jeff Chen [ctb],
Walt Kampas [ctb]
Maintainer: Andrea Batch <Andrea.Julca@bea.gov>
Diff between bea.R versions 1.0.2 dated 2017-07-13 and 1.0.4 dated 2017-12-07
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- R/beaUpdateMetadata.r | 45 +++++++++++++++++++++++++++------------------ 3 files changed, 35 insertions(+), 26 deletions(-)
Title: Tools for the Bayesian Discount Prior Function
Description: Functions for data augmentation using the
Bayesian discount prior function for 1 arm and 2 arm clinical trials.
Author: Shawn Balcome [cre],
Donnie Musgrove [aut],
Tarek Haddad [aut],
Christopher Jackson [ctb] (For the ppexp R code that was ported to
C++.)
Maintainer: Shawn Balcome <sbalcome@mdic.org>
Diff between bayesDP versions 1.2.2 dated 2017-08-17 and 1.3.0 dated 2017-12-07
bayesDP-1.2.2/bayesDP/R/bdpregression.R |only bayesDP-1.2.2/bayesDP/man/bdpregression.Rd |only bayesDP-1.2.2/bayesDP/man/plot-bdpregression-method.Rd |only bayesDP-1.2.2/bayesDP/man/print-bdpregression-method.Rd |only bayesDP-1.2.2/bayesDP/man/summary-bdpregression-method.Rd |only bayesDP-1.2.2/bayesDP/src/bayesDP-init.c |only bayesDP-1.3.0/bayesDP/DESCRIPTION | 8 bayesDP-1.3.0/bayesDP/MD5 | 95 - bayesDP-1.3.0/bayesDP/NAMESPACE | 7 bayesDP-1.3.0/bayesDP/NEWS.md | 17 bayesDP-1.3.0/bayesDP/R/RcppExports.R | 38 bayesDP-1.3.0/bayesDP/R/alpha_discount.R | 71 bayesDP-1.3.0/bayesDP/R/bdpbinomial.R | 223 +-- bayesDP-1.3.0/bayesDP/R/bdplm.R |only bayesDP-1.3.0/bayesDP/R/bdpnormal.R | 269 ++- bayesDP-1.3.0/bayesDP/R/bdpsurvival.R | 257 ++- bayesDP-1.3.0/bayesDP/R/plot.R | 276 +-- bayesDP-1.3.0/bayesDP/R/print.R | 43 bayesDP-1.3.0/bayesDP/R/probability_discount.R | 50 bayesDP-1.3.0/bayesDP/R/summary.R | 81 - bayesDP-1.3.0/bayesDP/build/vignette.rds |binary bayesDP-1.3.0/bayesDP/inst/doc/bdpbinomial-vignette.R | 152 +- bayesDP-1.3.0/bayesDP/inst/doc/bdpbinomial-vignette.Rmd | 66 bayesDP-1.3.0/bayesDP/inst/doc/bdpbinomial-vignette.html | 732 +++------ bayesDP-1.3.0/bayesDP/inst/doc/bdplm-vignette.R |only bayesDP-1.3.0/bayesDP/inst/doc/bdplm-vignette.Rmd |only bayesDP-1.3.0/bayesDP/inst/doc/bdplm-vignette.html |only bayesDP-1.3.0/bayesDP/inst/doc/bdpnormal-vignette.R | 172 +- bayesDP-1.3.0/bayesDP/inst/doc/bdpnormal-vignette.Rmd | 64 bayesDP-1.3.0/bayesDP/inst/doc/bdpnormal-vignette.html | 768 ++++------ bayesDP-1.3.0/bayesDP/inst/doc/bdpsurvival-vignette.R | 241 +-- bayesDP-1.3.0/bayesDP/inst/doc/bdpsurvival-vignette.Rmd | 74 - bayesDP-1.3.0/bayesDP/inst/doc/bdpsurvival-vignette.html | 1029 +++++--------- bayesDP-1.3.0/bayesDP/man/alpha_discount.Rd | 35 bayesDP-1.3.0/bayesDP/man/bdpbinomial.Rd | 38 bayesDP-1.3.0/bayesDP/man/bdplm.Rd |only bayesDP-1.3.0/bayesDP/man/bdpnormal.Rd | 36 bayesDP-1.3.0/bayesDP/man/bdpsurvival.Rd | 36 bayesDP-1.3.0/bayesDP/man/plot-bdpbinomial-method.Rd | 1 bayesDP-1.3.0/bayesDP/man/plot-bdpnormal-method.Rd | 1 bayesDP-1.3.0/bayesDP/man/plot-bdpsurvival-method.Rd | 1 bayesDP-1.3.0/bayesDP/man/ppexp.Rd | 1 bayesDP-1.3.0/bayesDP/man/print-bdpbinomial-method.Rd | 1 bayesDP-1.3.0/bayesDP/man/print-bdpnormal-method.Rd | 1 bayesDP-1.3.0/bayesDP/man/print-bdpsurvival-method.Rd | 1 bayesDP-1.3.0/bayesDP/man/probability_discount.Rd | 22 bayesDP-1.3.0/bayesDP/man/summary-bdpbinomial-method.Rd | 7 bayesDP-1.3.0/bayesDP/man/summary-bdpnormal-method.Rd | 7 bayesDP-1.3.0/bayesDP/man/summary-bdpsurvival-method.Rd | 1 bayesDP-1.3.0/bayesDP/src/RcppExports.cpp | 84 + bayesDP-1.3.0/bayesDP/src/bdplm.cpp |only bayesDP-1.3.0/bayesDP/vignettes/bdpbinomial-vignette.Rmd | 66 bayesDP-1.3.0/bayesDP/vignettes/bdplm-vignette.Rmd |only bayesDP-1.3.0/bayesDP/vignettes/bdpnormal-vignette.Rmd | 64 bayesDP-1.3.0/bayesDP/vignettes/bdpsurvival-vignette.Rmd | 74 - 55 files changed, 2499 insertions(+), 2711 deletions(-)
Title: Matrix Variate Distributions
Description: Provides tools for computing densities and generating random samples
from matrix variate distributions, including matrix normal, Wishart, matrix Student-t,
matrix Dirichlet and matrix beta distributions. For complete disposition, see
Gupta and Nagar (1999) <ISBN:978-1584880462>.
Author: Kisung You [aut, cre] (0000-0002-8584-459X)
Maintainer: Kisung You <kyou@nd.edu>
Diff between matdist versions 0.1.0 dated 2017-10-16 and 0.1.1 dated 2017-12-07
DESCRIPTION | 15 ++++++++------- MD5 | 14 ++++++++------ NAMESPACE | 1 + R/mxDir.R | 1 - R/package-matdist.R | 5 +++++ build |only inst |only man/matdist.Rd | 3 +++ man/mxDir.Rd | 1 - 9 files changed, 25 insertions(+), 15 deletions(-)
Title: Analysis of Discretely Observed Linear
Birth-and-Death(-and-Immigration) Markov Chains
Description: Provides Frequentist (EM) and Bayesian (MCMC) Methods for Inference of Birth-Death-Immigration Markov Chains.
Author: Charles Doss, Vladimir Minin, Marc Suchard
Maintainer: Charles Doss <cdoss@umn.edu>
Diff between DOBAD versions 1.0.5 dated 2016-03-24 and 1.0.6 dated 2017-12-07
DOBAD-1.0.5/DOBAD/vignettes/versions.sty |only DOBAD-1.0.6/DOBAD/DESCRIPTION | 12 +-- DOBAD-1.0.6/DOBAD/MD5 | 39 ++++++----- DOBAD-1.0.6/DOBAD/NAMESPACE | 6 + DOBAD-1.0.6/DOBAD/R/BD_EM_helpers.R | 75 +---------------------- DOBAD-1.0.6/DOBAD/R/BD_EM_helpers_covariates.R |only DOBAD-1.0.6/DOBAD/R/BD_EM_inference_covariates.R |only DOBAD-1.0.6/DOBAD/R/BD_generic_covariates.R |only DOBAD-1.0.6/DOBAD/build/vignette.rds |binary DOBAD-1.0.6/DOBAD/inst/doc/BD_EM.Rnw | 2 DOBAD-1.0.6/DOBAD/inst/doc/BD_EM.pdf |binary DOBAD-1.0.6/DOBAD/inst/doc/BD_EM_wImmig.R | 8 +- DOBAD-1.0.6/DOBAD/inst/doc/BD_EM_wImmig.Rnw | 26 +++---- DOBAD-1.0.6/DOBAD/inst/doc/BD_MCMC.R | 6 - DOBAD-1.0.6/DOBAD/inst/doc/BD_MCMC.Rnw | 28 ++++---- DOBAD-1.0.6/DOBAD/inst/doc/BD_MCMC.pdf |binary DOBAD-1.0.6/DOBAD/inst/doc/sim_condBD.R | 2 DOBAD-1.0.6/DOBAD/inst/doc/sim_condBD.Rnw | 18 ++--- DOBAD-1.0.6/DOBAD/man/EM.BD.SC.cov.1sv.Rd |only DOBAD-1.0.6/DOBAD/vignettes/BD_EM.Rnw | 2 DOBAD-1.0.6/DOBAD/vignettes/BD_EM_wImmig.Rnw | 26 +++---- DOBAD-1.0.6/DOBAD/vignettes/BD_MCMC.Rnw | 28 ++++---- DOBAD-1.0.6/DOBAD/vignettes/sim_condBD.Rnw | 18 ++--- 23 files changed, 118 insertions(+), 178 deletions(-)
Title: Histogram-Valued Data Analysis
Description: In the framework of Symbolic Data Analysis, a relatively new
approach to the statistical analysis of multi-valued data, we consider
histogram-valued data, i.e., data described by univariate histograms. The
methods and the basic statistics for histogram-valued data are mainly based
on the L2 Wasserstein metric between distributions, i.e., the Euclidean metric
between quantile functions. The package contains unsupervised classification
techniques, least square regression and tools for histogram-valued data and for
histogram time series. An introducing paper is Irpino A. Verde R. (2015) <doi:10.1007/s11634-014-0176-4>.
Author: Antonio Irpino [aut, cre]
Maintainer: Antonio Irpino <antonio.irpino@unicampania.it>
Diff between HistDAWass versions 0.1.8 dated 2017-10-06 and 1.0.0 dated 2017-12-07
DESCRIPTION | 12 MD5 | 37 NAMESPACE | 1 R/For_Rccp_int.R | 2 R/Fuzzy_cmeans.R | 656 ++----------- R/Kohonen_maps.R | 228 ++-- R/Met_distributionH.R | 2 R/Plotting_with_ggplot.R | 319 +++--- R/RcppExports.R | 124 ++ R/Utility.R | 110 -- R/unsuperv_classification.R | 317 ++---- man/WH_2d_Adaptive_Kohonen_maps.Rd | 10 man/WH_adaptive.kmeans.Rd | 4 man/WH_adaptive_fcmeans.Rd | 4 man/WH_kmeans.Rd | 7 src/Makevars | 4 src/Makevars.win | 3 src/RcppExports.cpp | 437 ++++++++- src/Utility_fun.cpp | 1767 ++++++++++++++++++++++++++++++++++++- src/init.cpp |only 20 files changed, 2859 insertions(+), 1185 deletions(-)
Title: Sample Selection Models
Description: Two-step
and maximum likelihood estimation
of Heckman-type sample selection models:
standard sample selection models (Tobit-2),
endogenous switching regression models (Tobit-5),
sample selection models with binary dependent outcome variable,
interval regression with sample selection (only ML estimation),
and endogenous treatment effects models.
Author: Arne Henningsen [aut, cre],
Ott Toomet [aut],
Sebastian Petersen [ctb]
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between sampleSelection versions 1.0-4 dated 2015-11-03 and 1.2-0 dated 2017-12-07
DESCRIPTION | 27 ++- MD5 | 95 ++++++----- NAMESPACE | 1 NEWS | 13 + R/checkModelType.R |only R/coef.selection.R | 11 - R/detectModelType.R | 43 +---- R/fitted.selection.R | 5 R/heckit2fit.R | 3 R/heckit5fit.R | 3 R/heckitTfit.R | 8 R/logLik.probit.R | 4 R/logLik.selection.R | 4 R/model.frame.selection.R | 63 ++++--- R/model.matrix.selection.R | 3 R/residuals.selection.R | 7 R/selection.R | 239 +++++++++++++++++++++------- R/summary.selection.R | 15 + R/tobit2Bfit.R | 10 - R/tobit2Intfit.R |only R/tobitTfit.R | 16 + R/treatReg.R |only R/vcov.selection.R | 8 build/vignette.rds |binary data/Smoke.rda |only inst/doc/intReg.R |only inst/doc/intReg.Rnw |only inst/doc/intReg.pdf |only inst/doc/selection.R | 31 +-- inst/doc/selection.Rnw | 10 - inst/doc/selection.bib | 36 ++++ inst/doc/selection.pdf |binary inst/doc/treatReg.R |only inst/doc/treatReg.Rnw |only inst/doc/treatReg.pdf |only man/Smoke.Rd |only man/coef.selection.Rd | 13 - man/heckit2fit.Rd | 15 + man/model.matrix.selection.Rd | 3 man/selection.Rd | 135 +++++++++++++--- man/vcov.selection.Rd | 12 - tests/Mroz87SelectionTest.Rout.save | 134 ++++++++-------- tests/binarySelectionOutcome.R | 14 + tests/binarySelectionOutcome.Rout.save | 274 ++++++++++++++++++++------------- tests/fail.R | 39 ++++ tests/fail.Rout.save | 104 ++++++++++-- tests/heckitIvTest.Rout.save | 12 - tests/intervalTest.R |only tests/intervalTest.Rout.save |only tests/invMillsRatioTest.Rout.save | 16 - tests/probit.Rout.save | 10 - tests/selection.Rout.save | 170 ++++++++++---------- vignettes/intReg.Rnw |only vignettes/selection.Rnw | 10 - vignettes/selection.bib | 36 ++++ vignettes/treatReg.Rnw |only 56 files changed, 1099 insertions(+), 553 deletions(-)
More information about sampleSelection at CRAN
Permanent link
Title: Odds Ratio Calculation for GAM(M)s & GLM(M)s
Description: Simplified odds ratio calculation of GAM(M)s & GLM(M)s.
Provides structured output (data frame) of all predictors and their corresponding odds ratios and confident intervals
for further analyses. It helps to avoid false references of predictors and increments by
specifying these parameters in a list instead of using 'exp(coef(model))'
(standard approach of odds ratio calculation for GLMs) which just returns a plain numeric output.
For GAM(M)s, odds ratio calculation is highly simplified with this package since it takes care of
the multiple 'predict()' calls of the chosen predictor while holding other predictors constant.
Also, this package allows odds ratio calculation of percentage steps across the whole
predictor distribution range for GAM(M)s. In both cases, confident intervals are returned additionally.
Calculated odds ratio of GAM(M)s can be inserted into the smooth function plot.
Author: Patrick Schratz [aut, cre] (0000-0003-0748-6624)
Maintainer: Patrick Schratz <patrick.schratz@gmail.com>
Diff between oddsratio versions 1.0.0 dated 2017-06-12 and 1.0.2 dated 2017-12-07
DESCRIPTION | 16 ++++++++++------ MD5 | 11 ++++++----- NEWS | 9 ++++++++- NEWS.md | 7 ++++++- build/vignette.rds |binary inst/CITATION |only inst/doc/function_tutorial.html | 10 +++++----- 7 files changed, 35 insertions(+), 18 deletions(-)
Title: Multivariate Multinomial Distribution Approximation and
Imputation for Incomplete Data
Description: Missingness in categorical data is a common problem in various real applications.
Traditional approaches either utilize only the complete observations or impute the missing data by some ad hoc methods rather than the true conditional distribution of the missing data,
thus losing or distorting the rich information in the partial observations.
This package develops a Bayesian nonparametric approach, the Dirichlet Process Mixture of Collapsed Product-Multinomials (DPMCPM, Wang et al. (2017) <arXiv:1712.02214v1>),
to model the full data jointly and compute the model efficiently.
By fitting an infinite mixture of product-multinomial distributions,
DPMCPM is applicable for any categorical data regardless of the true distribution,
which may contain complex association among variables.
Under the framework of latent class analysis, we show that DPMCPM can model general missing mechanisms by creating an extra category to denote missingness,
which implicitly integrates out the missing part with regard to their true conditional distribution.
Author: Chaojie Wang
Maintainer: Chaojie Wang <wang910930@163.com>
Diff between MMDai versions 1.3.0 dated 2017-10-02 and 1.4.0 dated 2017-12-07
DESCRIPTION | 19 +++++++++++++------ MD5 | 10 +++++----- R/ParEst.R | 11 +++++++++++ R/kIdentifier.R | 10 ++++++++++ man/ParEst.Rd | 12 ++++++++++++ man/kIdentifier.Rd | 11 +++++++++++ 6 files changed, 62 insertions(+), 11 deletions(-)
Title: Tokenization, Parts of Speech Tagging, Lemmatization and
Dependency Parsing with the 'UDPipe' 'NLP' Toolkit
Description: This natural language processing toolkit provides language-agnostic
'tokenization', 'parts of speech tagging', 'lemmatization' and 'dependency
parsing' of raw text. Next to text parsing, the package also allows you to train
annotation models based on data of 'treebanks' in 'CoNLL-U' format as provided
at <http://universaldependencies.org/format.html>. The techniques are explained
in detail in the paper: 'Tokenizing, POS Tagging, Lemmatizing and Parsing UD 2.0
with UDPipe', available at <doi:10.18653/v1/K17-3009>.
Author: Jan Wijffels [aut, cre, cph],
BNOSAC [cph],
Institute of Formal and Applied Linguistics, Faculty of Mathematics and
Physics, Charles University in Prague, Czech Republic [cph],
Milan Straka [cph],
Jana Straková [cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between udpipe versions 0.2.1 dated 2017-12-06 and 0.2.2 dated 2017-12-07
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ inst/doc/udpipe-annotation.html | 8 ++++---- inst/doc/udpipe-train.html | 6 +++--- src/udpipe.cpp | 16 ++++++++++------ 6 files changed, 29 insertions(+), 21 deletions(-)
Title: Composite Indicators Functions
Description: Contains several functions to enhance approaches to the Composite Indicators methods, focusing, in particular, on the normalisation and weighting-aggregation steps.
Author: Francesco Vidoli, Elisa Fusco
Maintainer: Francesco Vidoli <fvidoli@gmail.com>
Diff between Compind versions 1.2 dated 2017-06-20 and 1.2.1 dated 2017-12-07
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 6 ++++++ R/ci_geom_bod_intertemp.R | 3 ++- R/ci_geom_gen.R | 2 +- build/vignette.rds |binary 6 files changed, 18 insertions(+), 11 deletions(-)
Title: Antares Results Processing
Description: Process results generated by Antares, a powerful software developed by
RTE to simulate and study electric power systems (more information about
Antares here: <https://antares.rte-france.com>). This package provides
functions to create new columns like net load, load factors, upward and
downward margins or to compute aggregated statistics like economic surpluses
of consumers, producers and sectors.
Author: Jalal-Edine ZAWAM [aut, cre],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
RTE [cph]
Maintainer: Jalal-Edine ZAWAM <jalal-edine.zawam@rte-france.com>
Diff between antaresProcessing versions 0.11 dated 2017-07-13 and 0.12 dated 2017-12-07
antaresProcessing-0.11/antaresProcessing/R/ramps.R |only antaresProcessing-0.11/antaresProcessing/tests/testthat/test-addRamps.R |only antaresProcessing-0.12/antaresProcessing/DESCRIPTION | 27 antaresProcessing-0.12/antaresProcessing/MD5 | 93 +- antaresProcessing-0.12/antaresProcessing/NAMESPACE | 4 antaresProcessing-0.12/antaresProcessing/NEWS | 227 ++--- antaresProcessing-0.12/antaresProcessing/R/ExternalDependency.R | 356 ++++---- antaresProcessing-0.12/antaresProcessing/R/addDownwardMargin.R | 174 ++-- antaresProcessing-0.12/antaresProcessing/R/addExportAndImport.R | 238 ++--- antaresProcessing-0.12/antaresProcessing/R/addNetLoad.R | 142 +-- antaresProcessing-0.12/antaresProcessing/R/addUpwardMargin.R | 188 ++-- antaresProcessing-0.12/antaresProcessing/R/addloadFactorLink.R | 162 +-- antaresProcessing-0.12/antaresProcessing/R/h5_processing.R |only antaresProcessing-0.12/antaresProcessing/R/loadFactor.R | 245 ++--- antaresProcessing-0.12/antaresProcessing/R/mergeAllAntaresData.R |only antaresProcessing-0.12/antaresProcessing/R/modulation.R | 417 +++++----- antaresProcessing-0.12/antaresProcessing/R/netLoadRamp.R |only antaresProcessing-0.12/antaresProcessing/R/surplus.R | 310 +++---- antaresProcessing-0.12/antaresProcessing/R/surplusClusters.R | 293 +++---- antaresProcessing-0.12/antaresProcessing/R/surplusSectors.R | 223 ++--- antaresProcessing-0.12/antaresProcessing/R/synthesize.R | 50 + antaresProcessing-0.12/antaresProcessing/R/thermalGeneration.R |only antaresProcessing-0.12/antaresProcessing/R/zzz.R | 335 +++++--- antaresProcessing-0.12/antaresProcessing/README.md | 173 ++-- antaresProcessing-0.12/antaresProcessing/build/vignette.rds |binary antaresProcessing-0.12/antaresProcessing/inst/doc/antaresProcessing.html | 4 antaresProcessing-0.12/antaresProcessing/inst/testdata |only antaresProcessing-0.12/antaresProcessing/man/addExportAndImport.Rd | 12 antaresProcessing-0.12/antaresProcessing/man/addProcessingH5.Rd |only antaresProcessing-0.12/antaresProcessing/man/externalDependency.Rd | 4 antaresProcessing-0.12/antaresProcessing/man/loadFactor.Rd | 6 antaresProcessing-0.12/antaresProcessing/man/mergeAllAntaresData.Rd |only antaresProcessing-0.12/antaresProcessing/man/modulation.Rd | 37 antaresProcessing-0.12/antaresProcessing/man/netLoadRamp.Rd | 22 antaresProcessing-0.12/antaresProcessing/man/surplus.Rd | 8 antaresProcessing-0.12/antaresProcessing/man/surplusClusters.Rd | 4 antaresProcessing-0.12/antaresProcessing/man/surplusSectors.Rd | 5 antaresProcessing-0.12/antaresProcessing/man/synthesize.Rd | 6 antaresProcessing-0.12/antaresProcessing/man/thermalGeneration.Rd |only antaresProcessing-0.12/antaresProcessing/tests/testthat.R | 8 antaresProcessing-0.12/antaresProcessing/tests/testthat/helper_init.R | 64 + antaresProcessing-0.12/antaresProcessing/tests/testthat/test-addDownwardMargin.R | 140 +-- antaresProcessing-0.12/antaresProcessing/tests/testthat/test-addLoadFactorLink.R | 127 +-- antaresProcessing-0.12/antaresProcessing/tests/testthat/test-addUpwardMargin.R | 159 +-- antaresProcessing-0.12/antaresProcessing/tests/testthat/test-aggregateMcYears.R |only antaresProcessing-0.12/antaresProcessing/tests/testthat/test-checkColumns.R | 64 - antaresProcessing-0.12/antaresProcessing/tests/testthat/test-externalDependency.R | 160 +-- antaresProcessing-0.12/antaresProcessing/tests/testthat/test-h5_allias.R |only antaresProcessing-0.12/antaresProcessing/tests/testthat/test-h5_processing.R |only antaresProcessing-0.12/antaresProcessing/tests/testthat/test-mergeAllAntaresData.R |only antaresProcessing-0.12/antaresProcessing/tests/testthat/test-modulation.R | 114 +- antaresProcessing-0.12/antaresProcessing/tests/testthat/test-netLoad.R | 85 +- antaresProcessing-0.12/antaresProcessing/tests/testthat/test-netLoadRamp.R |only antaresProcessing-0.12/antaresProcessing/tests/testthat/test-onLoad.R |only antaresProcessing-0.12/antaresProcessing/tests/testthat/test-surplus.R | 148 +-- antaresProcessing-0.12/antaresProcessing/tests/testthat/test-thermalGeneration.R |only 56 files changed, 2595 insertions(+), 2239 deletions(-)
More information about antaresProcessing at CRAN
Permanent link
Title: Iterative Solvers for (Sparse) Linear System of Equations
Description: Solving a system of linear equations is one of the most fundamental
computational problems for many fields of mathematical studies, such as
regression problems from statistics or numerical partial differential equations.
We provide basic stationary iterative solvers such as Jacobi, Gauss-Seidel,
Successive Over-Relaxation and SSOR methods. Nonstationary, also known as
Krylov subspace methods are also provided. Sparse matrix computation is also supported
in that solving large and sparse linear systems can be manageable using 'Matrix' package
along with 'RcppArmadillo'. For a more detailed description, see a book by Saad (2003)
<doi:10.1137/1.9780898718003>.
Author: Kisung You [aut, cre] (0000-0002-8584-459X)
Maintainer: Kisung You <kyou@nd.edu>
Diff between Rlinsolve versions 0.1.1 dated 2017-10-07 and 0.1.2 dated 2017-12-07
DESCRIPTION | 13 +++++---- MD5 | 56 +++++++++++++++++++++-------------------- R/lsolve_BICG.R | 9 ++++-- R/lsolve_BICGSTAB.R | 5 ++- R/lsolve_CG.R | 4 ++ R/lsolve_CGS.R | 3 ++ R/lsolve_CHEBY.R | 4 ++ R/lsolve_GMRES.R | 5 ++- R/lsolve_GS.R | 4 ++ R/lsolve_JACOBI.R | 5 ++- R/lsolve_QMR.R | 5 ++- R/lsolve_SOR.R | 3 +- R/lsolve_SSOR.R | 3 +- R/package-Rlinsolve.R | 2 - build/partial.rdb |only build/vignette.rds |binary inst/REFERENCES.bib |only inst/doc/Rlinsolve_basics.html | 54 +++++++++++++++++++-------------------- man/Rlinsolve.Rd | 2 - man/basic_GS.Rd | 2 - man/basic_JACOBI.Rd | 3 +- man/basic_SOR.Rd | 2 - man/basic_SSOR.Rd | 2 - man/krylov_BICG.Rd | 6 ++-- man/krylov_BICGSTAB.Rd | 3 -- man/krylov_CG.Rd | 2 - man/krylov_CGS.Rd | 3 ++ man/krylov_CHEBY.Rd | 2 - man/krylov_GMRES.Rd | 2 - man/krylov_QMR.Rd | 3 -- 30 files changed, 117 insertions(+), 90 deletions(-)
Title: Various Plotting Functions
Description: Lots of plots, various labeling, axis and color scaling functions.
Author: Jim Lemon, Ben Bolker, Sander Oom,
Eduardo Klein, Barry Rowlingson,
Hadley Wickham, Anupam Tyagi,
Olivier Eterradossi, Gabor Grothendieck,
Michael Toews, John Kane, Rolf Turner,
Carl Witthoft, Julian Stander, Thomas Petzoldt,
Remko Duursma, Elisa Biancotto, Ofir Levy,
Christophe Dutang, Peter Solymos, Robby Engelmann,
Michael Hecker, Felix Steinbeck, Hans Borchers,
Henrik Singmann, Ted Toal, Derek Ogle, Darshan Baral,
Ulrike Groemping
Maintainer: Jim Lemon <drjimlemon@gmail.com>
Diff between plotrix versions 3.6-6 dated 2017-08-16 and 3.7 dated 2017-12-07
DESCRIPTION | 11 +-- MD5 | 35 ++++++---- NAMESPACE | 3 NEWS | 6 + R/barNest.R | 6 + R/brkdnNest.R | 4 - R/drawNestedBars.R | 115 ++++++++++++++++------------------- R/joyPlot.R |only R/multivari.R |only R/sizetree.R | 163 ++++++++++++++++++++++++++------------------------- R/triax.R | 13 ++-- data/soils.rda |binary demo/plotrix.R | 9 ++ man/dotplot.mtb.Rd | 121 +++++++++++++++++++------------------ man/gantt.chart.Rd | 11 +++ man/joyPlot.Rd |only man/multivari.Rd |only man/staircasePlot.Rd |only man/triax.plot.Rd | 3 man/triax.points.Rd | 5 - man/twoord.plot.Rd | 5 + 21 files changed, 275 insertions(+), 235 deletions(-)
Title: Spatial Data Download and Utility Functions
Description: A suite of conversion scripts to create internally standardized
spatial polygons data frames. Utility scripts use these data sets to return
values such as country, state, timezone, watershed, etc. associated with a
set of longitude/latitude pairs. (They also make cool maps.)
Author: Jonathan Callahan [aut, cre],
Ruby Fore [aut],
Will Leahy [aut],
Helen Miller [aut],
Henry Nguyen [aut],
Robin Winstanley [aut],
Alice Yang [aut]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaSpatialUtils versions 0.5.1 dated 2017-08-03 and 0.5.2 dated 2017-12-07
DESCRIPTION | 8 +++-- MD5 | 20 +++++++------- R/MazamaSpatialUtils.R | 58 ----------------------------------------- R/convertIndianLands.R | 8 ++--- R/convertWBDHUC.R | 8 ++--- demo/findCountries.R | 2 - inst/doc/introduction.Rmd | 63 +++++++++++++++++++++++++++------------------ inst/doc/introduction.html | 61 ++++++++++++++++++++++++++++--------------- man/MazamaSpatialUtils.Rd | 58 ----------------------------------------- tests/testthat/test1.R | 8 ++++- vignettes/introduction.Rmd | 63 +++++++++++++++++++++++++++------------------ 11 files changed, 148 insertions(+), 209 deletions(-)
More information about MazamaSpatialUtils at CRAN
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Title: Add Even More Interactivity to Interactive Charts
Description: Like package 'manipulate' does for static graphics, this package
helps to easily add controls like sliders, pickers, checkboxes, etc. that
can be used to modify the input data or the parameters of an interactive
chart created with package 'htmlwidgets'.
Author: Jalal-Edine ZAWAM [aut, cre],
Francois Guillem [aut],
RTE [cph],
JJ Allaire [ctb],
Marion Praz [ctb] (New user interface),
Benoit Thieurmel [ctb],
Titouan Robert [ctb]
Maintainer: Jalal-Edine ZAWAM <jalal-edine.zawam@rte-france.com>
Diff between manipulateWidget versions 0.7.0 dated 2017-06-17 and 0.8.0 dated 2017-12-07
manipulateWidget-0.7.0/manipulateWidget/R/combineWidgets.R |only manipulateWidget-0.7.0/manipulateWidget/R/compareOptions.R |only manipulateWidget-0.7.0/manipulateWidget/R/controls.R |only manipulateWidget-0.7.0/manipulateWidget/R/controlsUtils.R |only manipulateWidget-0.7.0/manipulateWidget/R/getRowAndCols.R |only manipulateWidget-0.7.0/manipulateWidget/R/manipulateWidget.R |only manipulateWidget-0.7.0/manipulateWidget/R/mwServer.R |only manipulateWidget-0.7.0/manipulateWidget/R/mwServer_helpers.R |only manipulateWidget-0.7.0/manipulateWidget/R/mwUI.R |only manipulateWidget-0.7.0/manipulateWidget/R/mwUI_controls.R |only manipulateWidget-0.7.0/manipulateWidget/R/preprocessControls.R |only manipulateWidget-0.7.0/manipulateWidget/R/staticImage.R |only manipulateWidget-0.7.0/manipulateWidget/inst/examples |only manipulateWidget-0.7.0/manipulateWidget/tests/testthat/test-mwServer.R |only manipulateWidget-0.7.0/manipulateWidget/tests/testthat/test-preprocessControls.R |only manipulateWidget-0.8.0/manipulateWidget/DESCRIPTION | 28 manipulateWidget-0.8.0/manipulateWidget/MD5 | 102 +- manipulateWidget-0.8.0/manipulateWidget/NAMESPACE | 8 manipulateWidget-0.8.0/manipulateWidget/NEWS.md | 18 manipulateWidget-0.8.0/manipulateWidget/R/combine_widgets.R |only manipulateWidget-0.8.0/manipulateWidget/R/compare_options.R |only manipulateWidget-0.8.0/manipulateWidget/R/controller.R |only manipulateWidget-0.8.0/manipulateWidget/R/debug.R |only manipulateWidget-0.8.0/manipulateWidget/R/get_output_and_render_func.R |only manipulateWidget-0.8.0/manipulateWidget/R/get_row_and_cols.R |only manipulateWidget-0.8.0/manipulateWidget/R/init_inputs.R |only manipulateWidget-0.8.0/manipulateWidget/R/input_class.R |only manipulateWidget-0.8.0/manipulateWidget/R/input_list_class.R |only manipulateWidget-0.8.0/manipulateWidget/R/input_utils.R |only manipulateWidget-0.8.0/manipulateWidget/R/inputs.R |only manipulateWidget-0.8.0/manipulateWidget/R/manipulate_widget.R |only manipulateWidget-0.8.0/manipulateWidget/R/module_ui.R |only manipulateWidget-0.8.0/manipulateWidget/R/mw_ui.R |only manipulateWidget-0.8.0/manipulateWidget/R/on_done.R |only manipulateWidget-0.8.0/manipulateWidget/R/static_image.R |only manipulateWidget-0.8.0/manipulateWidget/R/zzz.R | 174 +-- manipulateWidget-0.8.0/manipulateWidget/build/vignette.rds |binary manipulateWidget-0.8.0/manipulateWidget/inst/doc/manipulateWidgets.Rmd | 500 ++++----- manipulateWidget-0.8.0/manipulateWidget/inst/doc/manipulateWidgets.html | 64 - manipulateWidget-0.8.0/manipulateWidget/inst/manipulate_widget/manipulate_widget.css | 508 +++++----- manipulateWidget-0.8.0/manipulateWidget/inst/manipulate_widget/manipulate_widget.js | 56 - manipulateWidget-0.8.0/manipulateWidget/man/MWController-class.Rd |only manipulateWidget-0.8.0/manipulateWidget/man/combineWidgets-shiny.Rd | 2 manipulateWidget-0.8.0/manipulateWidget/man/combineWidgets.Rd | 2 manipulateWidget-0.8.0/manipulateWidget/man/compareOptions.Rd | 2 manipulateWidget-0.8.0/manipulateWidget/man/knit_print.MWController.Rd |only manipulateWidget-0.8.0/manipulateWidget/man/manipulateWidget.Rd | 22 manipulateWidget-0.8.0/manipulateWidget/man/mwCheckbox.Rd | 6 manipulateWidget-0.8.0/manipulateWidget/man/mwCheckboxGroup.Rd | 6 manipulateWidget-0.8.0/manipulateWidget/man/mwDate.Rd | 6 manipulateWidget-0.8.0/manipulateWidget/man/mwDateRange.Rd | 8 manipulateWidget-0.8.0/manipulateWidget/man/mwGroup.Rd | 8 manipulateWidget-0.8.0/manipulateWidget/man/mwModule.Rd |only manipulateWidget-0.8.0/manipulateWidget/man/mwNumeric.Rd | 6 manipulateWidget-0.8.0/manipulateWidget/man/mwPassword.Rd | 6 manipulateWidget-0.8.0/manipulateWidget/man/mwRadio.Rd | 6 manipulateWidget-0.8.0/manipulateWidget/man/mwSelect.Rd | 6 manipulateWidget-0.8.0/manipulateWidget/man/mwSharedValue.Rd |only manipulateWidget-0.8.0/manipulateWidget/man/mwSlider.Rd | 4 manipulateWidget-0.8.0/manipulateWidget/man/mwText.Rd | 4 manipulateWidget-0.8.0/manipulateWidget/man/staticPlot.Rd | 2 manipulateWidget-0.8.0/manipulateWidget/man/summary.MWController.Rd |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat.R | 8 manipulateWidget-0.8.0/manipulateWidget/tests/testthat/helper-input_class.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-controller.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-get_output_and_render_func.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-init_inputs.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-input_class.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-input_list_class.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-input_utils.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-inputs.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-manipulate_widget.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-mwModuleUI.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-on_done.R |only manipulateWidget-0.8.0/manipulateWidget/tests/testthat/test-staticPlot.R |only manipulateWidget-0.8.0/manipulateWidget/vignettes/manipulateWidgets.Rmd | 500 ++++----- 76 files changed, 1063 insertions(+), 999 deletions(-)
More information about manipulateWidget at CRAN
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Title: Identification, Tuning, Visualisation and Analysis of Labour
Market Areas
Description: Produces Labour Market Areas from commuting flows available at elementary territorial units. It provides tools for automatic tuning based on spatial contiguity. It also allows for statistical analyses and visualisation of the new functional geography.
Author: Daniela Ichim, Luisa Franconi, Michele D'Alo', Guido van den Heuvel
Maintainer: Luisa Franconi <franconi@istat.it>
Diff between LabourMarketAreas versions 3.1 dated 2017-08-29 and 3.2 dated 2017-12-07
DESCRIPTION | 8 +- MD5 | 10 +- R/LabourMarketAreas.R | 133 +++++++++++++++++++++++++-------------- man/CreateLMAShape.Rd | 3 man/LabourMarketAreas-package.Rd | 6 + man/findClusters.Rd | 4 - 6 files changed, 103 insertions(+), 61 deletions(-)
More information about LabourMarketAreas at CRAN
Permanent link
Title: Create Japanese Administration Area and Office Maps
Description: Utilizing the data that Japanese administration area provided
by the National Land Numerical Information download service (<http://nlftp.mlit.go.jp/ksj/index.html>).
This package provide map data is based on the Digital Map 25000(Map Image) published
by Geospatial Information Authority of Japan (Approval No.603FY2017 information usage <http://www.gsi.go.jp>).
Author: Shinya Uryu [aut, cre] (0000-0002-0493-6186),
Geospatial Information Authority of Japan [dtc] (This package data
sets, National Land numerical information by the Geographical
Survey Institute with the approval of Geographical Survey Institute
Head (Approval No.603FY2017 information usage))
Maintainer: Shinya Uryu <suika1127@gmail.com>
Diff between jpndistrict versions 0.2.0 dated 2017-07-23 and 0.3.0 dated 2017-12-07
jpndistrict-0.2.0/jpndistrict/inst/extdata/jpnprefs.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_01_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_02_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_03_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_04_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_05_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_06_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_07_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_08_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_09_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_10_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_11_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_12_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_13_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_14_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_15_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_16_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_17_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_18_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_19_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_20_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_21_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_22_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_23_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_24_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_25_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_26_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_27_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_28_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_29_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_30_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_31_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_32_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_33_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_34_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_35_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_36_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_37_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_38_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_39_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_40_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_41_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_42_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_43_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_44_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_45_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_46_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/inst/extdata/pref_47_city_spdf.rds |only jpndistrict-0.2.0/jpndistrict/man/spdf_jpn_admins.Rd |only jpndistrict-0.2.0/jpndistrict/man/spdf_jpn_cities.Rd |only jpndistrict-0.2.0/jpndistrict/man/spdf_jpn_pref.Rd |only jpndistrict-0.3.0/jpndistrict/DESCRIPTION | 37 +- jpndistrict-0.3.0/jpndistrict/LICENSE | 2 jpndistrict-0.3.0/jpndistrict/MD5 | 142 +++++----- jpndistrict-0.3.0/jpndistrict/NAMESPACE | 38 ++ jpndistrict-0.3.0/jpndistrict/NEWS.md | 18 + jpndistrict-0.3.0/jpndistrict/R/data.R | 16 + jpndistrict-0.3.0/jpndistrict/R/district_viewer.R | 28 - jpndistrict-0.3.0/jpndistrict/R/export_mesh.R |only jpndistrict-0.3.0/jpndistrict/R/find_city.R |only jpndistrict-0.3.0/jpndistrict/R/spdf_jpn.R | 121 +++++--- jpndistrict-0.3.0/jpndistrict/R/sysdata.rda |binary jpndistrict-0.3.0/jpndistrict/R/util.R | 119 +++++--- jpndistrict-0.3.0/jpndistrict/README.md | 58 +--- jpndistrict-0.3.0/jpndistrict/data/prefecture_mesh.rda |only jpndistrict-0.3.0/jpndistrict/inst/CITATION |only jpndistrict-0.3.0/jpndistrict/inst/extdata/ksj_n03 |only jpndistrict-0.3.0/jpndistrict/man/district_viewer.Rd | 4 jpndistrict-0.3.0/jpndistrict/man/find_city.Rd |only jpndistrict-0.3.0/jpndistrict/man/find_pref.Rd |only jpndistrict-0.3.0/jpndistrict/man/find_prefs.Rd |only jpndistrict-0.3.0/jpndistrict/man/jpn_admins.Rd |only jpndistrict-0.3.0/jpndistrict/man/jpn_cities.Rd |only jpndistrict-0.3.0/jpndistrict/man/jpn_pref.Rd |only jpndistrict-0.3.0/jpndistrict/man/mesh_district.Rd |only jpndistrict-0.3.0/jpndistrict/man/prefecture_mesh.Rd |only jpndistrict-0.3.0/jpndistrict/man/raw_bind_cityareas.Rd | 4 jpndistrict-0.3.0/jpndistrict/man/read_ksj_p34.Rd | 4 jpndistrict-0.3.0/jpndistrict/man/which_pol_min.Rd |only jpndistrict-0.3.0/jpndistrict/tests/testthat/test-find_city.R |only jpndistrict-0.3.0/jpndistrict/tests/testthat/test-spdf_jpn.R | 79 +++-- jpndistrict-0.3.0/jpndistrict/tests/testthat/test-util.R | 10 82 files changed, 422 insertions(+), 258 deletions(-)
Title: Regression Models for Interval Censored Data
Description: Regression models for interval censored data. Currently supports
Cox-PH, proportional odds, and accelerated failure time models. Allows for
semi and fully parametric models (parametric only for accelerated failure
time models) and Bayesian parametric models. Includes functions for easy visual
diagnostics of model fits and imputation of censored data.
Author: Clifford Anderson-Bergman
Maintainer: Clifford Anderson-Bergman <pistacliffcho@gmail.com>
Diff between icenReg versions 2.0.6 dated 2017-11-06 and 2.0.7 dated 2017-12-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 6 ++++++ R/internal_utilities.R | 2 +- inst/doc/icenReg.pdf |binary 5 files changed, 15 insertions(+), 9 deletions(-)
Title: Spatial and Network Based Individual Level Models for Epidemics
Description: Provides tools for simulating from discrete-time individual level models for infectious disease data analysis. This epidemic model class contains spatial and contact-network based models with two disease types: Susceptible-Infectious (SI) and Susceptible-Infectious-Removed (SIR).
Author: Vineetha Warriyar. K. V. and Rob Deardon
Maintainer: Vineetha Warriyar. K. V. <vineethawarriyar.kod@ucalgary.ca>
Diff between EpiILM versions 1.2 dated 2017-04-21 and 1.3 dated 2017-12-07
DESCRIPTION | 8 MD5 | 38 - R/epiBR0.r | 164 ++--- R/epicurve.r | 427 ++++++++------ R/epidata.r | 266 ++++---- R/epidic.r | 37 - R/epilike.r | 233 +++---- R/epimcmc.r | 810 ++++++++++++-------------- R/epispatial.r | 202 ++++-- man/epiBR0.Rd | 4 man/epicurve.Rd | 2 man/epidata.Rd | 40 - man/epidic.Rd | 2 man/epilike.Rd | 30 man/epimcmc.Rd | 33 - man/epispatial.Rd | 2 src/EpiBR0.f95 | 195 +++--- src/Epidata.f95 | 249 ++++---- src/Epilike.f95 | 451 +++++++------- src/Epimcmc.f95 | 1627 ++++++++++++++++++++++++++---------------------------- 20 files changed, 2516 insertions(+), 2304 deletions(-)