Title: Multivariate Imputation by Chained Equations
Description: Multiple imputation using Fully Conditional Specification (FCS)
implemented by the MICE algorithm as described in Van Buuren and
Groothuis-Oudshoorn (2011) <doi:10.18637/jss.v045.i03>. Each variable has
its own imputation model. Built-in imputation models are provided for
continuous data (predictive mean matching, normal), binary data (logistic
regression), unordered categorical data (polytomous logistic regression)
and ordered categorical data (proportional odds). MICE can also impute
continuous two-level data (normal model, pan, second-level variables).
Passive imputation can be used to maintain consistency between variables.
Various diagnostic plots are available to inspect the quality of the
imputations.
Author: Stef van Buuren [aut, cre],
Karin Groothuis-Oudshoorn [aut],
Alexander Robitzsch [ctb],
Gerko Vink [ctb],
Lisa Doove [ctb],
Shahab Jolani [ctb],
Rianne Schouten [ctb],
Philipp Gaffert [ctb],
Florian Meinfelder [ctb]
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>
Diff between mice versions 2.25 dated 2015-11-09 and 2.30 dated 2017-02-18
mice-2.25/mice/R/ccn.r |only mice-2.25/mice/man/cc-methods.Rd |only mice-2.25/mice/man/cci-methods.Rd |only mice-2.25/mice/man/ccn-methods.Rd |only mice-2.25/mice/man/ic-methods.Rd |only mice-2.25/mice/man/ici-methods.Rd |only mice-2.25/mice/man/icn-methods.Rd |only mice-2.30/mice/DESCRIPTION | 48 - mice-2.30/mice/MD5 | 268 +++--- mice-2.30/mice/NAMESPACE | 39 mice-2.30/mice/R/Ampute.R |only mice-2.30/mice/R/Mads.R |only mice-2.30/mice/R/RcppExports.r | 2 mice-2.30/mice/R/ampute.continuous.R |only mice-2.30/mice/R/ampute.default.R |only mice-2.30/mice/R/ampute.discrete.R |only mice-2.30/mice/R/ampute.mcar.R |only mice-2.30/mice/R/as.r | 2 mice-2.30/mice/R/auxiliary.r | 169 ++- mice-2.30/mice/R/bwplot.mads.R |only mice-2.30/mice/R/cc.r | 148 +-- mice-2.30/mice/R/cci.r | 137 +-- mice-2.30/mice/R/imports.R | 32 mice-2.30/mice/R/is.r | 105 +- mice-2.30/mice/R/long2mids.r | 26 mice-2.30/mice/R/mice.impute.2l.norm.r | 307 +++--- mice-2.30/mice/R/mice.impute.cart.r | 144 +-- mice-2.30/mice/R/mice.impute.midastouch.R |only mice-2.30/mice/R/mice.impute.pmm.r | 271 +++--- mice-2.30/mice/R/mice.impute.polr.r | 178 +-- mice-2.30/mice/R/mice.impute.polyreg.r | 198 ++-- mice-2.30/mice/R/mice.impute.ri.r | 136 +-- mice-2.30/mice/R/mice.r | 1116 ++++++++++++------------- mice-2.30/mice/R/ncc.R |only mice-2.30/mice/R/pool.compare.r | 11 mice-2.30/mice/R/pool.r | 422 ++++----- mice-2.30/mice/R/print.r | 199 ++-- mice-2.30/mice/R/summary.r | 167 ++- mice-2.30/mice/R/xyplot.mads.R |only mice-2.30/mice/R/zzz.r | 68 - mice-2.30/mice/README.md |only mice-2.30/mice/build |only mice-2.30/mice/inst/NEWS | 569 ++++++------ mice-2.30/mice/inst/doc/ampute.R |only mice-2.30/mice/inst/doc/ampute.Rmd |only mice-2.30/mice/inst/doc/ampute.html |only mice-2.30/mice/man/ampute.Rd |only mice-2.30/mice/man/ampute.continuous.Rd |only mice-2.30/mice/man/ampute.default.freq.Rd |only mice-2.30/mice/man/ampute.default.odds.Rd |only mice-2.30/mice/man/ampute.default.patterns.Rd |only mice-2.30/mice/man/ampute.default.type.Rd |only mice-2.30/mice/man/ampute.default.weights.Rd |only mice-2.30/mice/man/ampute.discrete.Rd |only mice-2.30/mice/man/ampute.mcar.Rd |only mice-2.30/mice/man/appendbreak.Rd | 10 mice-2.30/mice/man/as.mids.Rd | 4 mice-2.30/mice/man/as.mira.Rd | 10 mice-2.30/mice/man/boys.Rd | 22 mice-2.30/mice/man/bwplot.mads.Rd |only mice-2.30/mice/man/bwplot.mids.Rd | 7 mice-2.30/mice/man/cbind.mids.Rd | 12 mice-2.30/mice/man/cc.Rd |only mice-2.30/mice/man/cci.Rd |only mice-2.30/mice/man/complete.Rd | 5 mice-2.30/mice/man/densityplot.mids.Rd | 6 mice-2.30/mice/man/extractBS.Rd | 2 mice-2.30/mice/man/fdd.Rd | 18 mice-2.30/mice/man/fdgs.Rd | 25 mice-2.30/mice/man/fico.Rd | 2 mice-2.30/mice/man/flux.Rd | 4 mice-2.30/mice/man/fluxplot.Rd | 6 mice-2.30/mice/man/getfit.Rd | 4 mice-2.30/mice/man/glm.mids.Rd | 4 mice-2.30/mice/man/ibind.Rd | 2 mice-2.30/mice/man/ic.Rd |only mice-2.30/mice/man/ici.Rd |only mice-2.30/mice/man/ifdo.Rd | 6 mice-2.30/mice/man/is.mads.Rd |only mice-2.30/mice/man/is.mids.Rd | 2 mice-2.30/mice/man/is.mipo.Rd | 2 mice-2.30/mice/man/is.mira.Rd | 2 mice-2.30/mice/man/leiden85.Rd | 2 mice-2.30/mice/man/lm.mids.Rd | 5 mice-2.30/mice/man/long2mids.Rd | 4 mice-2.30/mice/man/mads-class.Rd |only mice-2.30/mice/man/mammalsleep.Rd | 12 mice-2.30/mice/man/md.pairs.Rd | 5 mice-2.30/mice/man/md.pattern.Rd | 6 mice-2.30/mice/man/mdc.Rd | 4 mice-2.30/mice/man/mice.Rd | 9 mice-2.30/mice/man/mice.impute.2l.norm.Rd | 2 mice-2.30/mice/man/mice.impute.2l.pan.Rd | 12 mice-2.30/mice/man/mice.impute.2lonly.mean.Rd | 2 mice-2.30/mice/man/mice.impute.2lonly.norm.Rd | 10 mice-2.30/mice/man/mice.impute.2lonly.pmm.Rd | 10 mice-2.30/mice/man/mice.impute.cart.Rd | 17 mice-2.30/mice/man/mice.impute.fastpmm.Rd | 30 mice-2.30/mice/man/mice.impute.lda.Rd | 2 mice-2.30/mice/man/mice.impute.logreg.Rd | 14 mice-2.30/mice/man/mice.impute.logreg.boot.Rd | 6 mice-2.30/mice/man/mice.impute.mean.Rd | 2 mice-2.30/mice/man/mice.impute.midastouch.Rd |only mice-2.30/mice/man/mice.impute.norm.Rd | 2 mice-2.30/mice/man/mice.impute.norm.boot.Rd | 2 mice-2.30/mice/man/mice.impute.norm.nob.Rd | 2 mice-2.30/mice/man/mice.impute.norm.predict.Rd | 2 mice-2.30/mice/man/mice.impute.passive.Rd | 2 mice-2.30/mice/man/mice.impute.pmm.Rd | 28 mice-2.30/mice/man/mice.impute.polr.Rd | 6 mice-2.30/mice/man/mice.impute.polyreg.Rd | 10 mice-2.30/mice/man/mice.impute.quadratic.Rd | 4 mice-2.30/mice/man/mice.impute.rf.Rd | 37 mice-2.30/mice/man/mice.impute.ri.Rd | 12 mice-2.30/mice/man/mice.impute.sample.Rd | 2 mice-2.30/mice/man/mice.mids.Rd | 13 mice-2.30/mice/man/mice.theme.Rd | 4 mice-2.30/mice/man/mids-class.Rd | 10 mice-2.30/mice/man/mids2mplus.Rd | 2 mice-2.30/mice/man/mids2spss.Rd | 2 mice-2.30/mice/man/mipo-class.Rd | 8 mice-2.30/mice/man/mira-class.Rd | 10 mice-2.30/mice/man/ncc.Rd |only mice-2.30/mice/man/nelsonaalen.Rd | 4 mice-2.30/mice/man/nhanes.Rd | 11 mice-2.30/mice/man/nhanes2.Rd | 11 mice-2.30/mice/man/nic.Rd |only mice-2.30/mice/man/norm.draw.Rd | 8 mice-2.30/mice/man/pattern.Rd | 6 mice-2.30/mice/man/plot.mids.Rd | 10 mice-2.30/mice/man/pmm.match.Rd |only mice-2.30/mice/man/pool.Rd | 18 mice-2.30/mice/man/pool.compare.Rd | 22 mice-2.30/mice/man/pool.r.squared.Rd | 8 mice-2.30/mice/man/pool.scalar.Rd | 11 mice-2.30/mice/man/popmis.Rd | 14 mice-2.30/mice/man/pops.Rd | 5 mice-2.30/mice/man/potthoffroy.Rd | 8 mice-2.30/mice/man/print.Rd | 2 mice-2.30/mice/man/print.mads.Rd |only mice-2.30/mice/man/quickpred.Rd | 5 mice-2.30/mice/man/rbind.mids.Rd | 20 mice-2.30/mice/man/selfreport.Rd | 16 mice-2.30/mice/man/squeeze.Rd | 10 mice-2.30/mice/man/stripplot.mids.Rd | 9 mice-2.30/mice/man/summary.Rd | 11 mice-2.30/mice/man/supports.transparent.Rd | 4 mice-2.30/mice/man/tbc.Rd | 10 mice-2.30/mice/man/version.Rd | 4 mice-2.30/mice/man/walking.Rd | 18 mice-2.30/mice/man/windspeed.Rd | 10 mice-2.30/mice/man/with.mids.Rd | 4 mice-2.30/mice/man/xyplot.mads.Rd |only mice-2.30/mice/man/xyplot.mids.Rd | 5 mice-2.30/mice/src/RcppExports.cpp | 10 mice-2.30/mice/src/match.cpp | 27 mice-2.30/mice/vignettes |only 157 files changed, 2903 insertions(+), 2627 deletions(-)
Title: R Tools for Helsinki Open Data
Description: Tools for accessing various open data sources in the Helsinki
region in Finland. Current data sources include
the Real Estate Department (<http://ptp.hel.fi/avoindata/>),
Service Map API (<http://api.hel.fi/servicemap/v1/>),
Linked Events API (<http://api.hel.fi/linkedevents/v0.1/>),
Helsinki Region Infoshare statistics API (<https://dev.hel.fi/stats/>).
Author: Juuso Parkkinen, Leo Lahti, Joona Lehtomaki
Maintainer: Juuso Parkkinen <juuso.parkkinen@iki.fi>
Diff between helsinki versions 0.9.27 dated 2015-05-06 and 0.9.29 dated 2017-02-18
helsinki-0.9.27/helsinki/vignettes/helsinki_tutorial.html |only helsinki-0.9.27/helsinki/vignettes/todo-datasets.md |only helsinki-0.9.29/helsinki/DESCRIPTION | 23 +++++---- helsinki-0.9.29/helsinki/LICENSE | 2 helsinki-0.9.29/helsinki/MD5 | 33 ++++++++------ helsinki-0.9.29/helsinki/NAMESPACE | 2 helsinki-0.9.29/helsinki/R/firstlib.R | 4 - helsinki-0.9.29/helsinki/README.md | 4 + helsinki-0.9.29/helsinki/build |only helsinki-0.9.29/helsinki/inst/doc |only helsinki-0.9.29/helsinki/man/aluejakokartat.Rd | 2 helsinki-0.9.29/helsinki/man/get_hri_stats.Rd | 2 helsinki-0.9.29/helsinki/man/get_hsy.Rd | 6 +- helsinki-0.9.29/helsinki/man/get_linkedevents.Rd | 4 - helsinki-0.9.29/helsinki/man/get_servicemap.Rd | 4 - helsinki-0.9.29/helsinki/man/helsinki-package.Rd | 2 helsinki-0.9.29/helsinki/vignettes/helsinki_tutorial.Rmd | 31 ++++++++----- helsinki-0.9.29/helsinki/vignettes/todo-datasets.Rmd |only 18 files changed, 69 insertions(+), 50 deletions(-)
Title: General-to-Specific (GETS) Modelling and Indicator Saturation
Methods
Description: Automated General-to-Specific (GETS) modelling of the mean and variance of a regression, and indicator saturation methods for detecting and testing for structural breaks in the mean.
Author: Genaro Sucarrat [aut, cre], Felix Pretis [aut], James Reade [aut]
Maintainer: Genaro Sucarrat <genaro.sucarrat@bi.no>
Diff between gets versions 0.11 dated 2017-02-17 and 0.12 dated 2017-02-18
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS | 8 ++++++++ R/gets-internal.R | 2 +- R/print.gets.R | 20 ++++++++++++-------- man/gets-package.Rd | 4 ++-- 6 files changed, 33 insertions(+), 21 deletions(-)
Title: Tools for Microscopy Imaging
Description: Tools for 3D imaging, mostly for biology/microscopy.
Read and write TIFF stacks. Functions for segmentation, filtering and analysing 3D point patterns.
Author: Volker Schmid [aut, cre], Priyanka Kukreja [ctb], Fabian Scheipl [ctb]
Maintainer: Volker Schmid <stats@volkerschmid.de>
Diff between bioimagetools versions 1.0.0 dated 2016-12-01 and 1.1.0 dated 2017-02-18
bioimagetools-1.0.0/bioimagetools/inst/doc/bioimagetools.R |only bioimagetools-1.0.0/bioimagetools/inst/doc/bioimagetools.html |only bioimagetools-1.0.0/bioimagetools/vignettes/bioimagetools.Rmd |only bioimagetools-1.1.0/bioimagetools/DESCRIPTION | 16 bioimagetools-1.1.0/bioimagetools/MD5 | 169 bioimagetools-1.1.0/bioimagetools/NAMESPACE | 1 bioimagetools-1.1.0/bioimagetools/NEWS | 15 bioimagetools-1.1.0/bioimagetools/R/Kcross3D.R | 214 - bioimagetools-1.1.0/bioimagetools/R/Kcross3denvelope.R |only bioimagetools-1.1.0/bioimagetools/R/L3cross3d.R | 56 bioimagetools-1.1.0/bioimagetools/R/Lcross3denvelope.R |only bioimagetools-1.1.0/bioimagetools/R/bwlabel3d.R | 108 bioimagetools-1.1.0/bioimagetools/R/cNNTest.R | 82 bioimagetools-1.1.0/bioimagetools/R/cmoments3d.R | 36 bioimagetools-1.1.0/bioimagetools/R/computedistances.R |only bioimagetools-1.1.0/bioimagetools/R/crossNN.R | 44 bioimagetools-1.1.0/bioimagetools/R/distance2border.R | 476 +- bioimagetools-1.1.0/bioimagetools/R/filterImage3d.R | 132 bioimagetools-1.1.0/bioimagetools/R/findedges.R |only bioimagetools-1.1.0/bioimagetools/R/findmaxline.R |only bioimagetools-1.1.0/bioimagetools/R/folder_choose.R | 40 bioimagetools-1.1.0/bioimagetools/R/image.R | 240 - bioimagetools-1.1.0/bioimagetools/R/intensity3d.R | 136 bioimagetools-1.1.0/bioimagetools/R/isinstalled.R |only bioimagetools-1.1.0/bioimagetools/R/isline.R |only bioimagetools-1.1.0/bioimagetools/R/mexican_hat_brush.R | 38 bioimagetools-1.1.0/bioimagetools/R/nearestclassdistances.R | 167 bioimagetools-1.1.0/bioimagetools/R/nearestclassdistances_c.R |only bioimagetools-1.1.0/bioimagetools/R/nearestneighbourdistribution.R | 54 bioimagetools-1.1.0/bioimagetools/R/nearestneighbourenvelope.R |only bioimagetools-1.1.0/bioimagetools/R/nearestneighbours.R | 116 bioimagetools-1.1.0/bioimagetools/R/onattach.R | 8 bioimagetools-1.1.0/bioimagetools/R/outside.R | 68 bioimagetools-1.1.0/bioimagetools/R/pcf3d.R |only bioimagetools-1.1.0/bioimagetools/R/pcfcross3d.R |only bioimagetools-1.1.0/bioimagetools/R/pcfcross3denvelope.R |only bioimagetools-1.1.0/bioimagetools/R/plot_nearest_class_distances.R | 120 bioimagetools-1.1.0/bioimagetools/R/point2class.R |only bioimagetools-1.1.0/bioimagetools/R/readClassTIF.R | 28 bioimagetools-1.1.0/bioimagetools/R/readbmp.R | 72 bioimagetools-1.1.0/bioimagetools/R/readtif.R | 131 bioimagetools-1.1.0/bioimagetools/R/segment.R | 634 +-- bioimagetools-1.1.0/bioimagetools/R/segmentoutside.R | 178 bioimagetools-1.1.0/bioimagetools/R/spots.R | 74 bioimagetools-1.1.0/bioimagetools/R/standardize.R | 88 bioimagetools-1.1.0/bioimagetools/R/status.R | 54 bioimagetools-1.1.0/bioimagetools/R/tablen.R | 86 bioimagetools-1.1.0/bioimagetools/R/testColoc.R | 44 bioimagetools-1.1.0/bioimagetools/R/writetif.R | 96 bioimagetools-1.1.0/bioimagetools/README.md | 45 bioimagetools-1.1.0/bioimagetools/TODO |only bioimagetools-1.1.0/bioimagetools/build/vignette.rds |binary bioimagetools-1.1.0/bioimagetools/inst/doc/bioimagetools.Rmd | 10 bioimagetools-1.1.0/bioimagetools/inst/doc/readwriteplot.R |only bioimagetools-1.1.0/bioimagetools/inst/doc/readwriteplot.Rmd |only bioimagetools-1.1.0/bioimagetools/inst/doc/readwriteplot.html |only bioimagetools-1.1.0/bioimagetools/inst/extdata/cell.csv | 2010 +++++----- bioimagetools-1.1.0/bioimagetools/inst/extdata/kreispunkte.table | 202 - bioimagetools-1.1.0/bioimagetools/man/K.cross.3D.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/L.cross.3D.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/bwlabel3d.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/cmoments3d.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/cnnTest.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/crossNN.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/distance2border.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/filterImage3d.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/folder.choose.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/img.Rd | 5 bioimagetools-1.1.0/bioimagetools/man/intensity3D.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/mexican.hat.brush.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/nearest.neighbour.distribution.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/nearestClassDistance.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/nearestClassDistances.Rd | 7 bioimagetools-1.1.0/bioimagetools/man/outside.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/plotNearestClassDistances.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/readBMP.Rd | 3 bioimagetools-1.1.0/bioimagetools/man/readClassTIF.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/readTIF.Rd | 3 bioimagetools-1.1.0/bioimagetools/man/segment.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/segment.outside.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/spots.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/standardize.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/table.n.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/testColoc.Rd | 1 bioimagetools-1.1.0/bioimagetools/man/writeTIF.Rd | 1 bioimagetools-1.1.0/bioimagetools/src/bioimagetools.h |only bioimagetools-1.1.0/bioimagetools/src/init.c |only bioimagetools-1.1.0/bioimagetools/src/nearestClassDistances.c | 30 bioimagetools-1.1.0/bioimagetools/vignettes/readwriteplot.Rmd |only bioimagetools-1.1.0/bioimagetools/vignettes/readwriteplot_cache |only 90 files changed, 3086 insertions(+), 3073 deletions(-)
Title: Analyze Cricket Performances Based on Data from Cricsheet
Description: Analyzing performances of cricketers and cricket teams
based on 'yaml' match data from Cricsheet <http://cricsheet.org>.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between yorkr versions 0.0.6 dated 2017-01-06 and 0.0.7 dated 2017-02-18
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/saveAllMatchesAllOpposition.R | 12 ++++++++---- R/saveAllMatchesBetweenTeams.R | 12 ++++++++---- man/saveAllMatchesAllOpposition.Rd | 5 ++++- man/saveAllMatchesBetweenTeams.Rd | 5 ++++- 6 files changed, 32 insertions(+), 18 deletions(-)
Title: Simple, Consistent Wrappers for Common String Operations
Description: A consistent, simple and easy to use set of wrappers around the
fantastic 'stringi' package. All function and argument names (and positions)
are consistent, all functions deal with "NA"'s and zero length vectors
in the same way, and the output from one function is easy to feed into
the input of another.
Author: Hadley Wickham [aut, cre, cph],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between stringr versions 1.1.0 dated 2016-08-19 and 1.2.0 dated 2017-02-18
DESCRIPTION | 14 +- LICENSE |only MD5 | 101 ++++++++------ NAMESPACE | 1 NEWS.md | 33 ++++ R/case.R | 11 - R/detect.r | 4 R/match.r | 6 R/modifiers.r | 4 R/replace.r | 83 ++++++++++-- R/sort.R | 23 ++- R/stringr.R |only R/subset.R | 19 ++ README.md | 162 +++++++++++++++++++---- build/vignette.rds |binary inst/doc/regular-expressions.R |only inst/doc/regular-expressions.Rmd |only inst/doc/regular-expressions.html |only inst/doc/stringr.R | 127 ++++++++++++++---- inst/doc/stringr.Rmd | 259 ++++++++++++++++++++++++++------------ inst/doc/stringr.html | 251 ++++++++++++++++++++++++------------ man/case.Rd | 14 +- man/invert_match.Rd | 1 man/modifier-deprecated.Rd | 3 man/modifiers.Rd | 13 + man/pipe.Rd | 1 man/str_c.Rd | 1 man/str_conv.Rd | 1 man/str_count.Rd | 1 man/str_detect.Rd | 5 man/str_dup.Rd | 1 man/str_extract.Rd | 1 man/str_interp.Rd | 1 man/str_length.Rd | 1 man/str_locate.Rd | 1 man/str_match.Rd | 1 man/str_order.Rd | 21 ++- man/str_pad.Rd | 1 man/str_replace.Rd | 62 +++++++-- man/str_replace_na.Rd | 10 - man/str_split.Rd | 1 man/str_sub.Rd | 1 man/str_subset.Rd | 18 ++ man/str_trim.Rd | 1 man/str_trunc.Rd | 1 man/str_view.Rd | 1 man/str_wrap.Rd | 1 man/stringr-data.Rd | 5 man/stringr-package.Rd |only man/word.Rd | 1 tests/testthat/test-match.r | 4 tests/testthat/test-replace.r | 21 +++ vignettes/regular-expressions.Rmd |only vignettes/releases |only vignettes/stringr.Rmd | 259 ++++++++++++++++++++++++++------------ 55 files changed, 1094 insertions(+), 458 deletions(-)
Title: Curve Fitting and Mixture Toxicity Assessment
Description: Curve Fitting for monotonic(sigmoidal) & non-monotonic(J-shaped)
concentration-response data. Prediction of mixture toxicity based on reference
models such as 'concentration addition', 'independent action', and 'generalized
concentration addition'.
Author: Xiangwei Zhu
Maintainer: Xiangwei Zhu <xwzhunc@gmail.com>
Diff between mixtox versions 1.3.1 dated 2016-07-14 and 1.3.2 dated 2017-02-18
DESCRIPTION | 8 +- MD5 | 66 +++++++++-------- NAMESPACE | 4 - R/BMD.R |only R/ECx.R | 94 +++++++++++++++--------- R/NOEC.R | 133 ++++++++++++++++++++++++++++------ R/curveFit.R | 217 +++++++++++--------------------------------------------- R/figPlot.R | 47 ++++++++---- R/gcaHill.R | 28 +++---- R/gcaPred.R | 30 ++++--- R/getCI.R |only R/iaPred.R | 2 R/jacobian.R |only R/nmECx.R | 23 ++++- R/qq4res.R | 9 +- R/tuneFit.R | 24 +++--- data/DTcv.rda |only man/BMD.Rd |only man/CEx.Rd | 14 ++- man/DTcv.Rd |only man/ECx.Rd | 27 +++--- man/NOEC.Rd | 68 ++++++++++------- man/caPred.Rd | 2 man/curveFit.Rd | 128 ++++++++++++++++++--------------- man/ecaPred.Rd | 2 man/eiaPred.Rd | 2 man/figPlot.Rd | 32 ++++---- man/gcaHill.Rd | 15 ++- man/gcaPred.Rd | 48 ++++++------ man/getCI.Rd |only man/iaPred.Rd | 6 - man/jacobian.Rd |only man/mixtox.Rd | 8 +- man/nmECx.Rd | 40 ++++------ man/qq4res.Rd | 13 +-- man/showEq.Rd | 2 man/tuneFit.Rd | 18 +--- man/unidTab.Rd | 2 38 files changed, 586 insertions(+), 526 deletions(-)
Title: Genome-Wide Haplotyping
Description: Haplotype calling from phased SNP data.
Author: Yuri Tani Utsunomiya, Marco Milanesi
Maintainer: Yuri Tani Utsunomiya <ytutsunomiya@gmail.com>
Diff between GHap versions 1.2.1 dated 2016-06-13 and 1.2.2 dated 2017-02-18
GHap-1.2.1/GHap/R/blmm.R |only GHap-1.2.1/GHap/R/mme.R |only GHap-1.2.1/GHap/man/blmm.Rd |only GHap-1.2.1/GHap/man/mme.Rd |only GHap-1.2.2/GHap/DESCRIPTION | 11 GHap-1.2.2/GHap/MD5 | 112 +- GHap-1.2.2/GHap/NAMESPACE | 9 GHap-1.2.2/GHap/R/ancestral.R | 2 GHap-1.2.2/GHap/R/assoc.R | 332 +++---- GHap-1.2.2/GHap/R/blockgen.R | 66 - GHap-1.2.2/GHap/R/blockstats.R | 21 GHap-1.2.2/GHap/R/blup.R | 81 + GHap-1.2.2/GHap/R/fst.R | 2 GHap-1.2.2/GHap/R/hap2tped.R | 2 GHap-1.2.2/GHap/R/haplotyping.R | 33 GHap-1.2.2/GHap/R/hapstats.R | 45 GHap-1.2.2/GHap/R/kinship.R | 18 GHap-1.2.2/GHap/R/kinv.R |only GHap-1.2.2/GHap/R/lmm.R | 297 ++---- GHap-1.2.2/GHap/R/loadhaplo.R | 2 GHap-1.2.2/GHap/R/loadphase.R | 2 GHap-1.2.2/GHap/R/maf.R | 11 GHap-1.2.2/GHap/R/makefile.R | 2 GHap-1.2.2/GHap/R/mergehaplo.R | 2 GHap-1.2.2/GHap/R/mergephase.R | 2 GHap-1.2.2/GHap/R/onload.R | 14 GHap-1.2.2/GHap/R/outhaplo.R | 2 GHap-1.2.2/GHap/R/outphase.R | 2 GHap-1.2.2/GHap/R/pca.R | 26 GHap-1.2.2/GHap/R/profile.R | 12 GHap-1.2.2/GHap/R/simpheno.R | 124 +- GHap-1.2.2/GHap/R/subsethaplo.R | 2 GHap-1.2.2/GHap/R/subsetphase.R | 2 GHap-1.2.2/GHap/build/vignette.rds |binary GHap-1.2.2/GHap/inst/doc/GHap_vignette.pdf |binary GHap-1.2.2/GHap/inst/updates.txt | 8 GHap-1.2.2/GHap/man/ancestral.Rd | 87 - GHap-1.2.2/GHap/man/assoc.Rd | 166 +-- GHap-1.2.2/GHap/man/blockgen.Rd | 24 GHap-1.2.2/GHap/man/blockstats.Rd | 32 GHap-1.2.2/GHap/man/blup.Rd | 121 +- GHap-1.2.2/GHap/man/fst.Rd | 21 GHap-1.2.2/GHap/man/hap2tped.Rd | 33 GHap-1.2.2/GHap/man/haplotyping.Rd | 20 GHap-1.2.2/GHap/man/hapstats.Rd | 29 GHap-1.2.2/GHap/man/kinship.Rd | 32 GHap-1.2.2/GHap/man/kinv.Rd |only GHap-1.2.2/GHap/man/lmm.Rd | 161 +-- GHap-1.2.2/GHap/man/loadhaplo.Rd | 24 GHap-1.2.2/GHap/man/loadphase.Rd | 2 GHap-1.2.2/GHap/man/maf.Rd | 10 GHap-1.2.2/GHap/man/mergehaplo.Rd | 18 GHap-1.2.2/GHap/man/mergephase.Rd | 17 GHap-1.2.2/GHap/man/outhaplo.Rd | 46 GHap-1.2.2/GHap/man/outphase.Rd | 15 GHap-1.2.2/GHap/man/pca.Rd | 39 GHap-1.2.2/GHap/man/simpheno.Rd | 92 + GHap-1.2.2/GHap/man/subsethaplo.Rd | 28 GHap-1.2.2/GHap/man/subsetphase.Rd | 6 GHap-1.2.2/GHap/vignettes/GHap_vignette.Rmd | 1319 +++++++++------------------- 60 files changed, 1660 insertions(+), 1926 deletions(-)
Title: An Interface to the 'AutoDesk' 'API' Platform
Description: An interface to the 'AutoDesk' 'API' Platform including the Authentication
'API' for obtaining authentication to the 'AutoDesk' Forge Platform, Data Management
'API' for managing data across the platform's cloud services, Design Automation 'API'
for performing automated tasks on design files in the cloud, Model
Derivative 'API' for translating design files into different formats, sending
them to the viewer app, and extracting design data, and Viewer for rendering
2D and 3D models (see <https://developer.autodesk.com> for more information).
Author: Paul Govan [aut, cre]
Maintainer: Paul Govan <pgovan1@aggienetwork.com>
Diff between AutoDeskR versions 0.1.1 dated 2016-11-11 and 0.1.2 dated 2017-02-18
DESCRIPTION | 16 ++++++++-------- MD5 | 11 ++++++----- NEWS.md |only README.md | 22 +++++++++++++++++----- inst/doc/AutoDeskR.Rmd | 18 +++++++++++++++--- inst/doc/AutoDeskR.html | 14 +++++++++----- vignettes/AutoDeskR.Rmd | 18 +++++++++++++++--- 7 files changed, 70 insertions(+), 29 deletions(-)
Title: A Model Comparison Perspective
Description: Accompanies "Designing experiments and
analyzing data: A model comparison perspective" (3rd ed.) by
Maxwell, Delaney, & Kelley (forthcoming from Routledge).
Contains all of the data sets in the book's chapters and
end-of-chapter exercises. Information about the book is available at
<http://www.DesigningExperiments.com>.
Author: Scott Maxwell [aut],
Harold Delaney [aut],
Ken Kelley [aut, cre]
Maintainer: Ken Kelley <kkelley@nd.edu>
Diff between AMCP versions 0.0.3 dated 2017-01-23 and 0.0.4 dated 2017-02-18
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AMCP-0.0.4/AMCP/data/C16E5.rda |only AMCP-0.0.4/AMCP/data/C16E7.rda |only AMCP-0.0.4/AMCP/data/C16E9.rda |only AMCP-0.0.4/AMCP/data/C16T1.rda |only AMCP-0.0.4/AMCP/data/C16T4.rda |only AMCP-0.0.4/AMCP/data/C1E18.rda |only AMCP-0.0.4/AMCP/data/C1E19.rda |only AMCP-0.0.4/AMCP/data/C1E21.rda |only AMCP-0.0.4/AMCP/data/C1E22.rda |only AMCP-0.0.4/AMCP/data/C1E23.rda |only AMCP-0.0.4/AMCP/data/C1T1.rda |only AMCP-0.0.4/AMCP/data/C3E10.rda |only AMCP-0.0.4/AMCP/data/C3E11.rda |only AMCP-0.0.4/AMCP/data/C3E19.rda |only AMCP-0.0.4/AMCP/data/C3E20.rda |only AMCP-0.0.4/AMCP/data/C3E21.rda |only AMCP-0.0.4/AMCP/data/C3E22.rda |only AMCP-0.0.4/AMCP/data/C3E9.rda |only AMCP-0.0.4/AMCP/data/C3T1.rda |only AMCP-0.0.4/AMCP/data/C3T3.rda |only AMCP-0.0.4/AMCP/data/C3T7R.rda |only AMCP-0.0.4/AMCP/data/C3T9R.rda |only AMCP-0.0.4/AMCP/data/C4E11.rda |only AMCP-0.0.4/AMCP/data/C4E12.rda |only AMCP-0.0.4/AMCP/data/C4E13.rda |only AMCP-0.0.4/AMCP/data/C4T1.rda |only AMCP-0.0.4/AMCP/data/C4T7.rda |only 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|only AMCP-0.0.4/AMCP/man/chapter_8_exercise_18.Rd |only AMCP-0.0.4/AMCP/man/chapter_8_exercise_19.Rd |only AMCP-0.0.4/AMCP/man/chapter_8_table_12.Rd | 77 + AMCP-0.0.4/AMCP/man/chapter_9_exercise_4.Rd |only AMCP-0.0.4/AMCP/man/chapter_9_extension_exercise_1.Rd |only AMCP-0.0.4/AMCP/man/chapter_9_extension_exercise_2.Rd |only AMCP-0.0.4/AMCP/man/chapter_9_extension_table_1.Rd | 71 + AMCP-0.0.4/AMCP/man/chapter_9_table_1.Rd | 72 + AMCP-0.0.4/AMCP/man/chapter_9_table_11.Rd | 75 + AMCP-0.0.4/AMCP/man/chapter_9_table_7.Rd | 73 + AMCP-0.0.4/AMCP/man/tutorial_1_table_1.Rd |only AMCP-0.0.4/AMCP/man/tutorial_2_table_1.Rd |only AMCP-0.0.4/AMCP/man/tutorial_3a_table_1.Rd |only AMCP-0.0.4/AMCP/man/tutorial_3a_table_2.Rd |only AMCP-0.0.4/AMCP/man/tutorial_3a_table_4.Rd |only AMCP-0.0.4/AMCP/man/tutorial_3a_table_5.Rd |only 417 files changed, 2754 insertions(+), 1204 deletions(-)
Title: Fetch Economic and Financial Time Series Data from Public
Sources
Description: Download economic and financial time series from public sources,
including the St Louis Fed's FRED system, Yahoo Finance, the US Bureau of Labor Statistics,
the US Energy Information Administration, the World Bank, Eurostat, the European Central Bank,
the Bank of England, the UK's Office of National Statistics, and INSEE.
Author: Abiel Reinhart <abielr@gmail.com>
Maintainer: Abiel Reinhart <abielr@gmail.com>
Diff between pdfetch versions 0.1.7 dated 2015-07-18 and 0.1.8 dated 2017-02-18
DESCRIPTION | 17 ++- MD5 | 32 +++---- NAMESPACE | 2 NEWS | 9 ++ R/pdfetch.R | 196 ++++++++++++++++++++++---------------------- man/pdfetch.Rd | 2 man/pdfetch_BLS.Rd | 12 +- man/pdfetch_BOE.Rd | 12 +- man/pdfetch_ECB.Rd | 12 +- man/pdfetch_EIA.Rd | 12 +- man/pdfetch_EUROSTAT.Rd | 13 +- man/pdfetch_EUROSTAT_DSD.Rd | 9 -- man/pdfetch_FRED.Rd | 12 +- man/pdfetch_INSEE.Rd | 12 +- man/pdfetch_ONS.Rd | 14 +-- man/pdfetch_WB.Rd | 12 +- man/pdfetch_YAHOO.Rd | 16 +-- 17 files changed, 214 insertions(+), 180 deletions(-)
Title: Multi-Step Adaptive Estimation Methods for Sparse Regressions
Description: Multi-step adaptive elastic-net (MSAENet) algorithm for
feature selection in high-dimensional regressions proposed in
Xiao and Xu (2015) <DOI:10.1080/00949655.2015.1016944>,
with additional support for multi-step adaptive MCP-net
(MSAMNet) and multi-step adaptive SCAD-net (MSASNet) methods.
Author: Nan Xiao [aut, cre]
Maintainer: Nan Xiao <me@nanx.me>
Diff between msaenet versions 2.3 dated 2017-02-10 and 2.4 dated 2017-02-18
DESCRIPTION | 8 ++-- MD5 | 64 +++++++++++++++++++------------------- NEWS.md | 7 ++++ R/plot-msaenet.R | 63 ++++++++++++++++++++++++++----------- inst/doc/msaenet.html | 8 ++-- man/aenet.Rd | 7 +--- man/amnet.Rd | 1 man/asnet.Rd | 1 man/coef.msaenet.Rd | 1 man/msaenet-package.Rd | 7 +--- man/msaenet.Rd | 7 +--- man/msaenet.fn.Rd | 1 man/msaenet.fp.Rd | 1 man/msaenet.mae.Rd | 1 man/msaenet.mse.Rd | 1 man/msaenet.nzv.Rd | 1 man/msaenet.nzv.all.Rd | 1 man/msaenet.rmse.Rd | 1 man/msaenet.rmsle.Rd | 1 man/msaenet.sim.binomial.Rd | 1 man/msaenet.sim.cox.Rd | 7 +--- man/msaenet.sim.gaussian.Rd | 7 +--- man/msaenet.sim.poisson.Rd | 1 man/msaenet.tp.Rd | 1 man/msaenet.tune.glmnet.Rd | 7 +--- man/msaenet.tune.ncvreg.Rd | 7 +--- man/msaenet.tune.nsteps.glmnet.Rd | 1 man/msaenet.tune.nsteps.ncvreg.Rd | 1 man/msamnet.Rd | 1 man/msasnet.Rd | 1 man/plot.msaenet.Rd | 18 +++++++++- man/predict.msaenet.Rd | 1 man/print.msaenet.Rd | 1 33 files changed, 128 insertions(+), 109 deletions(-)
Title: Atlas of Living Australia (ALA) Data and Resources in R
Description: The Atlas of Living Australia (ALA) provides tools to enable users
of biodiversity information to find, access, combine and visualise data on
Australian plants and animals; these have been made available from
<http://ala.org.au/>. ALA4R provides a subset of the tools to be
directly used within R. It enables the R community to directly access data
and resources hosted by the ALA. Our goal is to enable outputs (e.g.
observations of species) to be queried and output in a range of standard
formats.
Author: Ben Raymond [aut, cre],
Jeremy VanDerWal [aut],
Lee Belbin [aut],
Michael Sumner [ctb],
Tom August [ctb],
John Baumgartner [ctb]
Maintainer: Ben Raymond <ben_ala@untan.gl>
Diff between ALA4R versions 1.5.3 dated 2016-11-09 and 1.5.6 dated 2017-02-18
DESCRIPTION | 8 +- MD5 | 69 ++++++++++----------- R/occurrences.R | 3 R/onload.R | 1 R/search_guids.R | 10 ++- README.md | 24 ++++++- inst/doc/ALA4R.R | 2 inst/doc/ALA4R.Rmd | 4 - inst/doc/ALA4R.html | 122 +++++++++++++++++++------------------- man/ALA4R.Rd | 1 man/ala_cache_filename.Rd | 1 man/ala_config.Rd | 1 man/ala_fields.Rd | 1 man/ala_list.Rd | 1 man/ala_lists.Rd | 1 man/aus.Rd | 1 man/check_assertions.Rd | 1 man/fieldguide.Rd | 1 man/image_info.Rd | 1 man/intersect_points.Rd | 1 man/occurrence_details.Rd | 1 man/occurrences.Rd | 1 man/occurrences_plot.Rd | 1 man/occurrences_s3.Rd | 7 -- man/search_fulltext.Rd | 1 man/search_guids.Rd | 1 man/search_layers.Rd | 1 man/search_names.Rd | 1 man/search_partial_name.Rd | 1 man/sites_by_species.Rd | 1 man/species_info.Rd | 1 man/specieslist.Rd | 1 man/taxinfo_download.Rd | 1 tests/testthat/test-lists.R | 4 - tests/testthat/test-portability.R |only vignettes/ALA4R.Rmd | 4 - 36 files changed, 144 insertions(+), 137 deletions(-)