Title: Remote Sensing for Movement Ecology
Description: Tools to analyze animal tracking data with remote sensing.
Author: Ruben Remelgado [aut, cre]
Maintainer: Ruben Remelgado <ruben.remelgado@uni-wuerzburg.de>
Diff between rsMove versions 0.1 dated 2017-07-15 and 0.2.1 dated 2017-08-19
rsMove-0.1/rsMove/R/spaceDirSample.R |only rsMove-0.1/rsMove/R/timeDirSample.R |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130804.cpg |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130804.dbf |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130804.prj |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130804.sbn |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130804.sbx |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130804.shp |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130804.shx |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130805-20130811.cpg |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130805-20130811.dbf |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130805-20130811.prj |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130805-20130811.sbn |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130805-20130811.sbx |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130805-20130811.shp |only rsMove-0.1/rsMove/inst/extdata/konstanz_20130805-20130811.shx |only rsMove-0.1/rsMove/inst/extdata/latLon_example.cpg |only rsMove-0.1/rsMove/inst/extdata/latLon_example.dbf |only rsMove-0.1/rsMove/inst/extdata/latLon_example.prj |only rsMove-0.1/rsMove/inst/extdata/latLon_example.sbn |only rsMove-0.1/rsMove/inst/extdata/latLon_example.sbx |only rsMove-0.1/rsMove/inst/extdata/latLon_example.shp |only rsMove-0.1/rsMove/inst/extdata/latLon_example.shx |only rsMove-0.1/rsMove/man/spaceDirSample.Rd |only rsMove-0.1/rsMove/man/timeDirSample.Rd |only rsMove-0.2.1/rsMove/DESCRIPTION | 13 rsMove-0.2.1/rsMove/MD5 | 121 ++-- rsMove-0.2.1/rsMove/NAMESPACE | 28 rsMove-0.2.1/rsMove/NEWS.md |only rsMove-0.2.1/rsMove/R/backSample.R | 50 - rsMove-0.2.1/rsMove/R/dataQuery.R | 134 ++-- rsMove-0.2.1/rsMove/R/getEnv.R |only rsMove-0.2.1/rsMove/R/hotMove.R | 11 rsMove-0.2.1/rsMove/R/hotMoveStats.R | 241 +++++--- rsMove-0.2.1/rsMove/R/imgInt.R | 112 +-- rsMove-0.2.1/rsMove/R/labelSample.R | 51 + rsMove-0.2.1/rsMove/R/modelApply.R | 37 - rsMove-0.2.1/rsMove/R/moveCloud.R |only rsMove-0.2.1/rsMove/R/moveModel.R | 74 +- rsMove-0.2.1/rsMove/R/moveReduce.R |only rsMove-0.2.1/rsMove/R/moveSeg.R | 283 +++++++--- rsMove-0.2.1/rsMove/R/plotMove.R |only rsMove-0.2.1/rsMove/R/poly2sample.R | 58 -- rsMove-0.2.1/rsMove/R/proSat.R |only rsMove-0.2.1/rsMove/R/rsComposite.R | 191 +++--- rsMove-0.2.1/rsMove/R/sMoveRes.R |only rsMove-0.2.1/rsMove/R/sampleMove.R | 29 - rsMove-0.2.1/rsMove/R/satTime.R |only rsMove-0.2.1/rsMove/R/segRaster.R | 4 rsMove-0.2.1/rsMove/R/spaceDir.R |only rsMove-0.2.1/rsMove/R/specVar.R |only rsMove-0.2.1/rsMove/R/tMoveRes.R |only rsMove-0.2.1/rsMove/R/timeDir.R |only rsMove-0.2.1/rsMove/inst/extdata/CCI_variables.csv |only rsMove-0.2.1/rsMove/inst/extdata/EarthEnv.zip |only rsMove-0.2.1/rsMove/inst/extdata/EarthEnv_variables.csv |only rsMove-0.2.1/rsMove/inst/extdata/GFC.zip |only rsMove-0.2.1/rsMove/inst/extdata/GFC_variables.csv |only rsMove-0.2.1/rsMove/inst/extdata/GSW.zip |only rsMove-0.2.1/rsMove/inst/extdata/GSW_variables.csv |only rsMove-0.2.1/rsMove/inst/extdata/HSM_variables.csv |only rsMove-0.2.1/rsMove/inst/extdata/MODIS.zip |only rsMove-0.2.1/rsMove/inst/extdata/MODIS_sat-variables.csv |only rsMove-0.2.1/rsMove/inst/extdata/NEO_variables.csv |only rsMove-0.2.1/rsMove/inst/extdata/WhiteStork_20130802.csv |only rsMove-0.2.1/rsMove/inst/extdata/konstanz_20130804.csv |only rsMove-0.2.1/rsMove/inst/extdata/konstanz_20130804_2.csv |only rsMove-0.2.1/rsMove/inst/extdata/konstanz_20130805-20130811.csv |only rsMove-0.2.1/rsMove/inst/extdata/latlon_example.csv |only rsMove-0.2.1/rsMove/inst/extdata/sat-variables.csv |only rsMove-0.2.1/rsMove/man/backSample.Rd | 14 rsMove-0.2.1/rsMove/man/dataQuery.Rd | 45 - rsMove-0.2.1/rsMove/man/getEnv.Rd |only rsMove-0.2.1/rsMove/man/hotMove.Rd | 9 rsMove-0.2.1/rsMove/man/hotMoveStats.Rd | 39 - rsMove-0.2.1/rsMove/man/imgInt.Rd | 35 - rsMove-0.2.1/rsMove/man/labelSample.Rd | 15 rsMove-0.2.1/rsMove/man/modelApply.Rd | 32 - rsMove-0.2.1/rsMove/man/moveCloud.Rd |only rsMove-0.2.1/rsMove/man/moveModel.Rd | 37 - rsMove-0.2.1/rsMove/man/moveReduce.Rd |only rsMove-0.2.1/rsMove/man/moveSeg.Rd | 76 +- rsMove-0.2.1/rsMove/man/plotMove.Rd |only rsMove-0.2.1/rsMove/man/poly2sample.Rd | 20 rsMove-0.2.1/rsMove/man/proSat.Rd |only rsMove-0.2.1/rsMove/man/rsComposite.Rd | 53 - rsMove-0.2.1/rsMove/man/sMoveRes.Rd |only rsMove-0.2.1/rsMove/man/sampleMove.Rd | 18 rsMove-0.2.1/rsMove/man/satTime.Rd |only rsMove-0.2.1/rsMove/man/segRaster.Rd | 2 rsMove-0.2.1/rsMove/man/spaceDir.Rd |only rsMove-0.2.1/rsMove/man/specVar.Rd |only rsMove-0.2.1/rsMove/man/tMoveRes.Rd |only rsMove-0.2.1/rsMove/man/timeDir.Rd |only 94 files changed, 1039 insertions(+), 793 deletions(-)
Title: Bayesian Package for Network Changepoint Analysis
Description: Network changepoint analysis for undirected network data. The package implements a hidden Markov multilinear tensor regression model (Park and Sohn, 2017, <http://jhp.snu.ac.kr/NetworkChange.pdf>). Functions for break number detection using the approximate marginal likelihood and WAIC are also provided.
Author: Jong Hee Park [aut,cre], Yunkyu Sohn [aut]
Maintainer: Jong Hee Park <jongheepark@snu.ac.kr>
Diff between NetworkChange versions 0.2 dated 2017-05-30 and 0.3 dated 2017-08-19
DESCRIPTION | 16 +- MD5 | 88 +++++++------ NAMESPACE | 49 +++++-- R/MakeBlockNetworkChange.R | 26 ++++ R/MarginalCompare.R |only R/NetworkChange-package.r |only R/NetworkChange.r | 130 ++++++++++++++++++++ R/NetworkStatic.R | 111 ++++++++++++++++- R/ULUstateSample.r | 19 ++ R/Utils.R | 126 ------------------- R/WaicCompare.R |only R/multiplot.R | 19 ++ R/plotContour.R | 28 ++++ R/plotU.R | 28 ++++ R/plotV.R | 27 +++- R/startS.R | 20 ++- R/startUV.R | 15 ++ R/updateP.R | 16 ++ R/updateS.R | 25 +++ R/updateU.R | 23 +++ R/updateUm.R | 23 +++ R/updateV.R | 21 ++- R/updateVm.R | 25 +++ R/updateb.R | 19 ++ R/updatebm.R | 20 ++- R/updates2m.R | 18 ++ man/MakeBlockNetworkChange.Rd | 80 ++++-------- man/MarginalCompare.Rd | 25 ++- man/NetworkChange.Rd | 268 ++++++++++++++++++++---------------------- man/NetworkStatic.Rd | 218 ++++++++++++++++------------------ man/ULUstateSample.Rd |only man/WaicCompare.Rd | 29 +++- man/multiplot.Rd | 34 ++--- man/plotContour.Rd | 48 +++---- man/plotU.Rd | 49 +++---- man/plotV.Rd | 45 +++---- man/startS.Rd | 45 +++---- man/startUV.Rd | 27 +--- man/updateP.Rd | 30 ++-- man/updateS.Rd | 76 +++++------ man/updateU.Rd | 51 +++---- man/updateUm.Rd | 67 ++++------ man/updateV.Rd | 53 +++----- man/updateVm.Rd | 60 ++++----- man/updateb.Rd | 42 ++---- man/updatebm.Rd | 47 +++---- man/updates2m.Rd | 42 ++---- 47 files changed, 1286 insertions(+), 942 deletions(-)
Title: Text Corpus Analysis
Description: Text corpus data analysis, with full support for Unicode. Functions for reading data from newline-delimited JSON files, for normalizing and tokenizing text, for searching for term occurrences, and for computing term occurrence frequencies (including n-grams).
Author: Patrick O. Perry [aut, cre],
Martin Porter and Richard Boulton [ctb, cph] (Snowball),
Carlo Strapparava and Alessandro Valitutti [ctb, cph] (WordNet-Affect),
Unicode, Inc. [ctb, cph] (Unicode Character Database)
Maintainer: Patrick O. Perry <pperry@stern.nyu.edu>
Diff between corpus versions 0.8.0 dated 2017-07-19 and 0.9.0 dated 2017-08-19
corpus-0.8.0/corpus/man/term_counts.Rd |only corpus-0.8.0/corpus/src/text_base.c |only corpus-0.8.0/corpus/tests/testthat/test-term_counts.R |only corpus-0.9.0/corpus/DESCRIPTION | 9 corpus-0.9.0/corpus/MD5 | 197 ++-- corpus-0.9.0/corpus/NAMESPACE | 32 corpus-0.9.0/corpus/NEWS | 67 + corpus-0.9.0/corpus/R/coerce.R | 29 corpus-0.9.0/corpus/R/corpus.R |only corpus-0.9.0/corpus/R/deprecated.R | 33 corpus-0.9.0/corpus/R/frame.R | 67 + corpus-0.9.0/corpus/R/term.R | 19 corpus-0.9.0/corpus/R/text-base.R | 44 - corpus-0.9.0/corpus/R/text-primitive.R | 198 ++++ corpus-0.9.0/corpus/R/text.R | 80 + corpus-0.9.0/corpus/R/text_filter.R | 25 corpus-0.9.0/corpus/R/text_locate.R | 62 + corpus-0.9.0/corpus/R/text_split.R | 7 corpus-0.9.0/corpus/R/text_stats.R |only corpus-0.9.0/corpus/R/token.R | 51 + corpus-0.9.0/corpus/R/utf8.R | 29 corpus-0.9.0/corpus/README | 43 corpus-0.9.0/corpus/build/vignette.rds |binary corpus-0.9.0/corpus/data/wnaffect.rda |only corpus-0.9.0/corpus/inst/doc/chinese.Rmd | 4 corpus-0.9.0/corpus/inst/doc/chinese.html | 75 - corpus-0.9.0/corpus/inst/doc/corpus.Rmd |only corpus-0.9.0/corpus/inst/doc/corpus.html |only corpus-0.9.0/corpus/inst/doc/unicode.Rmd | 10 corpus-0.9.0/corpus/inst/doc/unicode.html | 45 - corpus-0.9.0/corpus/man/as_text.Rd | 43 corpus-0.9.0/corpus/man/corpus-deprecated.Rd | 102 -- corpus-0.9.0/corpus/man/corpus-package.Rd | 1 corpus-0.9.0/corpus/man/corpus.Rd |only corpus-0.9.0/corpus/man/corpus_frame.Rd |only corpus-0.9.0/corpus/man/stopwords.Rd | 11 corpus-0.9.0/corpus/man/term_matrix.Rd | 2 corpus-0.9.0/corpus/man/term_stats.Rd |only corpus-0.9.0/corpus/man/text_filter.Rd | 43 corpus-0.9.0/corpus/man/text_locate.Rd | 36 corpus-0.9.0/corpus/man/text_split.Rd | 23 corpus-0.9.0/corpus/man/text_stats.Rd |only corpus-0.9.0/corpus/man/text_sub.Rd |only corpus-0.9.0/corpus/man/text_tokens.Rd | 60 - corpus-0.9.0/corpus/man/utf8.Rd | 68 + corpus-0.9.0/corpus/man/wnaffect.Rd |only corpus-0.9.0/corpus/src/context.c | 4 corpus-0.9.0/corpus/src/corpus/lib/strntod.c | 44 - corpus-0.9.0/corpus/src/corpus/src/data.c | 13 corpus-0.9.0/corpus/src/corpus/src/data.h | 4 corpus-0.9.0/corpus/src/corpus/src/error.c | 4 corpus-0.9.0/corpus/src/corpus/src/error.h | 2 corpus-0.9.0/corpus/src/corpus/src/filter.c | 10 corpus-0.9.0/corpus/src/corpus/src/filter.h | 10 corpus-0.9.0/corpus/src/corpus/src/main_ngrams.c | 5 corpus-0.9.0/corpus/src/corpus/src/main_tokens.c | 6 corpus-0.9.0/corpus/src/corpus/src/private/sentsuppress.h | 32 corpus-0.9.0/corpus/src/corpus/src/private/stopwords.h | 23 corpus-0.9.0/corpus/src/corpus/src/typemap.c | 64 - corpus-0.9.0/corpus/src/corpus/src/typemap.h | 6 corpus-0.9.0/corpus/src/corpus/src/unicode/wordbreakprop.h | 440 +++++----- corpus-0.9.0/corpus/src/corpus/src/wordscan.c | 76 + corpus-0.9.0/corpus/src/corpus/src/wordscan.h | 2 corpus-0.9.0/corpus/src/corpus/tests/check_data.c | 4 corpus-0.9.0/corpus/src/corpus/tests/check_filter.c | 37 corpus-0.9.0/corpus/src/corpus/tests/check_typemap.c | 21 corpus-0.9.0/corpus/src/corpus/tests/check_wordscan.c | 70 + corpus-0.9.0/corpus/src/corpus/util/NOTES.txt |only corpus-0.9.0/corpus/src/corpus/util/gen-sentsuppress.py | 20 corpus-0.9.0/corpus/src/corpus/util/gen-stopwords.py | 2 corpus-0.9.0/corpus/src/corpus/util/gen-wordbreak.py | 41 corpus-0.9.0/corpus/src/decode.c | 36 corpus-0.9.0/corpus/src/format.c | 36 corpus-0.9.0/corpus/src/init.c | 14 corpus-0.9.0/corpus/src/json.c | 55 - corpus-0.9.0/corpus/src/print_table.c | 26 corpus-0.9.0/corpus/src/rcorpus.h | 28 corpus-0.9.0/corpus/src/text.c |only corpus-0.9.0/corpus/src/text_c.c |only corpus-0.9.0/corpus/src/text_filter.c | 48 - corpus-0.9.0/corpus/src/text_locate.c | 184 +++- corpus-0.9.0/corpus/src/text_nunit.c | 22 corpus-0.9.0/corpus/src/text_split.c | 70 + corpus-0.9.0/corpus/src/text_sub.c |only corpus-0.9.0/corpus/src/utf8.c | 15 corpus-0.9.0/corpus/src/utf8_normalize.c |only corpus-0.9.0/corpus/tests/testthat/test-frame.R | 13 corpus-0.9.0/corpus/tests/testthat/test-json_scalar.R | 22 corpus-0.9.0/corpus/tests/testthat/test-term_matrix.R | 2 corpus-0.9.0/corpus/tests/testthat/test-term_stats.R |only corpus-0.9.0/corpus/tests/testthat/test-text.R | 94 -- corpus-0.9.0/corpus/tests/testthat/test-text_c.R |only corpus-0.9.0/corpus/tests/testthat/test-text_filter.R | 19 corpus-0.9.0/corpus/tests/testthat/test-text_index.R |only corpus-0.9.0/corpus/tests/testthat/test-text_locate.R | 80 + corpus-0.9.0/corpus/tests/testthat/test-text_names.R | 29 corpus-0.9.0/corpus/tests/testthat/test-text_nunit.R | 11 corpus-0.9.0/corpus/tests/testthat/test-text_primitive.R |only corpus-0.9.0/corpus/tests/testthat/test-text_print.R |only corpus-0.9.0/corpus/tests/testthat/test-text_split_sentences.R | 85 + corpus-0.9.0/corpus/tests/testthat/test-text_split_tokens.R | 43 corpus-0.9.0/corpus/tests/testthat/test-text_stats.R |only corpus-0.9.0/corpus/tests/testthat/test-text_sub.R |only corpus-0.9.0/corpus/tests/testthat/test-text_tokens.R | 7 corpus-0.9.0/corpus/tests/testthat/test-utf8_format.R | 71 + corpus-0.9.0/corpus/tests/testthat/test-utf8_normalize.R |only corpus-0.9.0/corpus/tests/testthat/test-utf8_print.R | 9 corpus-0.9.0/corpus/tests/testthat/test-utf8_width.R | 6 corpus-0.9.0/corpus/vignettes/chinese-wordcloud-1.png |binary corpus-0.9.0/corpus/vignettes/chinese.Rmd | 73 - corpus-0.9.0/corpus/vignettes/corpus-emotion-1.png |only corpus-0.9.0/corpus/vignettes/corpus-heapslaw-1.png |only corpus-0.9.0/corpus/vignettes/corpus-witch-occurences-1.png |only corpus-0.9.0/corpus/vignettes/corpus.Rmd |only corpus-0.9.0/corpus/vignettes/unicode.Rmd | 45 - 115 files changed, 2284 insertions(+), 1314 deletions(-)
Title: Removes the Cell-Cycle Effect from Single-Cell RNA-Sequencing
Data
Description: Implements a method for identifying and removing
the cell-cycle effect from scRNA-Seq data. The description of the
method is in Barron M. and Li J. (2016) <doi:10.1038/srep33892>. Identifying and removing
the cell-cycle effect from single-cell RNA-Sequencing data. Submitted.
Different from previous methods, ccRemover implements a mechanism that
formally tests whether a component is cell-cycle related or not, and thus
while it often thoroughly removes the cell-cycle effect, it preserves
other features/signals of interest in the data.
Author: Jun Li [aut, cre],
Martin Barron [aut]
Maintainer: Jun Li <jun.li@nd.edu>
Diff between ccRemover versions 1.0.3 dated 2017-08-12 and 1.0.4 dated 2017-08-19
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/ccRemover.R | 4 ++-- inst/doc/ccRemover_tutorial.html | 4 ++-- 4 files changed, 10 insertions(+), 10 deletions(-)
Title: An API Wrapper for the Bureau of Labor Statistics (BLS)
Description: Scrapes various data from <https://www.bls.gov/>. The U.S. Bureau of Labor Statistics is the statistical branch of the United States Department of Labor. The package has additional functions to help parse, analyze and visualize the data.
Author: Kris Eberwein [aut, cre]
Maintainer: Kris Eberwein <eberwein@knights.ucf.edu>
Diff between blscrapeR versions 2.1.5 dated 2017-06-19 and 3.0.0 dated 2017-08-19
blscrapeR-2.1.5/blscrapeR/R/maps.R |only blscrapeR-3.0.0/blscrapeR/DESCRIPTION | 11 - blscrapeR-3.0.0/blscrapeR/MD5 | 90 ++++----- blscrapeR-3.0.0/blscrapeR/NAMESPACE | 9 blscrapeR-3.0.0/blscrapeR/NEWS.md | 22 ++ blscrapeR-3.0.0/blscrapeR/R/bls_api.R | 19 + blscrapeR-3.0.0/blscrapeR/R/dateCast.R | 8 blscrapeR-3.0.0/blscrapeR/R/get_bls_county.R | 98 ++++------ blscrapeR-3.0.0/blscrapeR/R/get_bls_state.R | 28 +- blscrapeR-3.0.0/blscrapeR/R/inflation.R | 34 +-- blscrapeR-3.0.0/blscrapeR/R/map_bls.R |only blscrapeR-3.0.0/blscrapeR/R/qcew_api.R | 6 blscrapeR-3.0.0/blscrapeR/R/utils.R | 11 - blscrapeR-3.0.0/blscrapeR/R/zzz.R |only blscrapeR-3.0.0/blscrapeR/README.md | 51 +---- blscrapeR-3.0.0/blscrapeR/build/vignette.rds |binary blscrapeR-3.0.0/blscrapeR/data/county_map_data.rda |binary blscrapeR-3.0.0/blscrapeR/data/state_map_data.rda |binary blscrapeR-3.0.0/blscrapeR/inst/doc/Employment_and_Unemployment.R | 33 --- blscrapeR-3.0.0/blscrapeR/inst/doc/Employment_and_Unemployment.Rmd | 45 +--- blscrapeR-3.0.0/blscrapeR/inst/doc/Employment_and_Unemployment.html | 70 ++----- blscrapeR-3.0.0/blscrapeR/inst/doc/Inflation_and_Prices.Rmd | 10 - blscrapeR-3.0.0/blscrapeR/inst/doc/Inflation_and_Prices.html | 30 +-- blscrapeR-3.0.0/blscrapeR/inst/doc/Mapping_BLS_Data.R | 7 blscrapeR-3.0.0/blscrapeR/inst/doc/Mapping_BLS_Data.Rmd | 11 - blscrapeR-3.0.0/blscrapeR/inst/doc/Mapping_BLS_Data.html | 19 - blscrapeR-3.0.0/blscrapeR/inst/doc/Pay_and_Benefits.R | 25 +- blscrapeR-3.0.0/blscrapeR/inst/doc/Pay_and_Benefits.Rmd | 33 +-- blscrapeR-3.0.0/blscrapeR/inst/doc/Pay_and_Benefits.html | 47 ++-- blscrapeR-3.0.0/blscrapeR/inst/doc/QCEW_API.Rmd | 10 - blscrapeR-3.0.0/blscrapeR/inst/doc/QCEW_API.html | 28 +- blscrapeR-3.0.0/blscrapeR/inst/doc/qcew.Rmd | 10 - blscrapeR-3.0.0/blscrapeR/inst/doc/qcew.html | 30 +-- blscrapeR-3.0.0/blscrapeR/man/bls_api.Rd | 4 blscrapeR-3.0.0/blscrapeR/man/bls_map_county.Rd | 2 blscrapeR-3.0.0/blscrapeR/man/bls_map_state.Rd | 2 blscrapeR-3.0.0/blscrapeR/man/dateCast.Rd | 8 blscrapeR-3.0.0/blscrapeR/man/get_bls_county.Rd | 8 blscrapeR-3.0.0/blscrapeR/man/inflation_adjust.Rd | 6 blscrapeR-3.0.0/blscrapeR/man/map_bls.Rd |only blscrapeR-3.0.0/blscrapeR/man/qcew_api.Rd | 3 blscrapeR-3.0.0/blscrapeR/tests/testthat/test_bls_api.R | 2 blscrapeR-3.0.0/blscrapeR/vignettes/Employment_and_Unemployment.Rmd | 45 +--- blscrapeR-3.0.0/blscrapeR/vignettes/Inflation_and_Prices.Rmd | 10 - blscrapeR-3.0.0/blscrapeR/vignettes/Mapping_BLS_Data.Rmd | 11 - blscrapeR-3.0.0/blscrapeR/vignettes/Pay_and_Benefits.Rmd | 33 +-- blscrapeR-3.0.0/blscrapeR/vignettes/QCEW_API.Rmd | 10 - blscrapeR-3.0.0/blscrapeR/vignettes/qcew.Rmd | 10 - 48 files changed, 421 insertions(+), 528 deletions(-)
Title: Allele Imputation and Haplotype Reconstruction from Pedigree
Databases
Description: Tools to simulate alphanumeric alleles, impute genetic missing data and reconstruct non-recombinant haplotypes from pedigree databases in a deterministic way. Allelic simulations can be implemented taking into account many factors (such as number of families, markers, alleles per marker,
probability and proportion of missing genotypes, recombination rate, etc).
Genotype imputation can be used with simulated datasets or real databases (previously loaded in .ped format). Haplotype reconstruction can be carried
out even with missing data, since the program firstly imputes each family genotype (without a reference panel), to later reconstruct the corresponding
haplotypes for each family member. All this considering that each individual (due to meiosis) should unequivocally have two alleles per marker (one inherited
from each parent) and thus imputation and reconstruction results can be deterministically calculated.
Author: Nathan Medina-Rodriguez and Angelo Santana
Maintainer: Nathan Medina-Rodriguez <nathan.medina@ulpgc.es>
Diff between alleHap versions 0.9.7 dated 2016-07-17 and 0.9.9 dated 2017-08-19
DESCRIPTION | 10 +++++----- MD5 | 35 +++++++++++++++++++---------------- R/alleHaplotyper.R | 11 ++++++----- R/alleImputer.R | 6 ++++-- R/alleLoader.R | 4 ++-- build/vignette.rds |binary demo |only inst/doc/alleHap.R | 5 ++++- inst/doc/alleHap.Rnw | 12 ++++++++---- inst/doc/alleHap.pdf |binary man/alleHap-package.Rd | 6 +++--- man/alleHaplotyper.Rd | 1 - man/alleImputer.Rd | 1 - man/alleLoader.Rd | 1 - man/alleSimulator.Rd | 1 - vignettes/alleHap-concordance.tex | 4 ++-- vignettes/alleHap.Rnw | 12 ++++++++---- vignettes/appendix.sty |only vignettes/main_Page.tex | 2 +- 19 files changed, 62 insertions(+), 49 deletions(-)
Title: Embedding Interactive Charts Generated with ECharts Library into
Shiny Applications
Description: Embed interactive charts to their Shiny applications. These charts will be generated by ECharts library developed by Baidu (<http://echarts.baidu.com/>). Current version supports line chart, bar chart, pie chart, scatter plot, gauge, word cloud, radar chart, tree map, and heat map.
Author: Xiaodong Deng [aut, cre],
Hao Zhu [ctr],
Yiheng Li [ctr],
Janet Wagner [ctr]
Maintainer: Xiaodong Deng <xd_deng@hotmail.com>
Diff between ECharts2Shiny versions 0.2.11 dated 2017-05-09 and 0.2.12 dated 2017-08-19
DESCRIPTION | 8 - MD5 | 33 ++-- NEWS | 5 R/bar_chart.R | 305 +++++++++++++++++++-------------------- R/deliverChart.R | 31 +-- R/heat_map.R | 192 ++++++++++++------------ R/internal_functions.R | 120 +++++++-------- R/line_chart.R | 380 ++++++++++++++++++++++++------------------------- R/loadEChartsTheme.R | 31 +-- R/pie_chart.R | 300 ++++++++++++++++++-------------------- R/scatter.R | 368 +++++++++++++++++++++++------------------------ R/tree_map.R | 163 ++++++++++----------- README.md |only inst/doc/intro.html | 4 man/renderBarChart.Rd | 8 - man/renderHeatMap.Rd | 13 + man/renderLineChart.Rd | 13 + man/renderScatter.Rd | 13 + 18 files changed, 1004 insertions(+), 983 deletions(-)
Title: Penalized Ordinal Regression
Description: Fits ordinal regression models with elastic net penalty.
Supported model families include cumulative probability, stopping ratio,
continuation ratio, and adjacent category. These families are a subset of
vector glm's which belong to a model class we call the elementwise link
multinomial-ordinal (ELMO) class. Each family in this class links a vector
of covariates to a vector of class probabilities. Each of these families
has a parallel form, which is appropriate for ordinal response data, as
well as a nonparallel form that is appropriate for an unordered categorical
response, or as a more flexible model for ordinal data. The parallel model
has a single set of coefficients, whereas the nonparallel model has a set of
coefficients for each response category except the baseline category. It is
also possible to fit a model with both parallel and nonparallel terms, which
we call the semi-parallel model. The semi-parallel model has the flexibility
of the nonparallel model, but the elastic net penalty shrinks it toward the
parallel model.
Author: Michael Wurm [aut, cre],
Paul Rathouz [aut],
Bret Hanlon [aut]
Maintainer: Michael Wurm <wurm@wisc.edu>
Diff between ordinalNet versions 2.0 dated 2017-05-08 and 2.1 dated 2017-08-19
ordinalNet-2.0/ordinalNet/R/methods.R |only ordinalNet-2.0/ordinalNet/man/coef.ordinalNetFit.Rd |only ordinalNet-2.0/ordinalNet/man/predict.ordinalNetFit.Rd |only ordinalNet-2.0/ordinalNet/man/summary.ordinalNetFit.Rd |only ordinalNet-2.1/ordinalNet/DESCRIPTION | 45 +++++++------- ordinalNet-2.1/ordinalNet/MD5 | 27 ++++---- ordinalNet-2.1/ordinalNet/NAMESPACE | 9 +- ordinalNet-2.1/ordinalNet/R/ordinalNet-methods.R |only ordinalNet-2.1/ordinalNet/R/ordinalNet.R | 19 ++--- ordinalNet-2.1/ordinalNet/R/ordinalNetCV.R | 35 ++++++++--- ordinalNet-2.1/ordinalNet/R/ordinalNetTune.R | 54 +++++++++++++++-- ordinalNet-2.1/ordinalNet/man/coef.ordinalNet.Rd |only ordinalNet-2.1/ordinalNet/man/ordinalNet.Rd | 6 - ordinalNet-2.1/ordinalNet/man/ordinalNetCV.Rd | 7 -- ordinalNet-2.1/ordinalNet/man/ordinalNetTune.Rd | 6 + ordinalNet-2.1/ordinalNet/man/plot.ordinalNetTune.Rd |only ordinalNet-2.1/ordinalNet/man/predict.ordinalNet.Rd |only ordinalNet-2.1/ordinalNet/man/print.ordinalNet.Rd |only ordinalNet-2.1/ordinalNet/man/print.ordinalNetCV.Rd |only ordinalNet-2.1/ordinalNet/man/print.ordinalNetTune.Rd |only 20 files changed, 141 insertions(+), 67 deletions(-)