Title: Statistical Methods for the Analysis of Case-Control Point Data
Description: Various statistical methods for analyzing case-control point data.
The methods available closely follow those in chapter 6 of Applied Spatial
Statistics for Public Health Data by Waller and Gotway (2004).
Author: Joshua French
Maintainer: Joshua French <joshua.french@ucdenver.edu>
Diff between smacpod versions 1.3.0 dated 2015-09-13 and 1.4.1 dated 2015-09-22
smacpod-1.3.0/smacpod/R/kdest.R |only smacpod-1.4.1/smacpod/DESCRIPTION | 11 - smacpod-1.4.1/smacpod/MD5 | 30 ++- smacpod-1.4.1/smacpod/NAMESPACE | 2 smacpod-1.4.1/smacpod/R/Kdest.R |only smacpod-1.4.1/smacpod/R/kdplus.test.R | 2 smacpod-1.4.1/smacpod/R/nn.R | 2 smacpod-1.4.1/smacpod/R/noc.R |only smacpod-1.4.1/smacpod/R/plot.scan.R | 16 - smacpod-1.4.1/smacpod/R/spscan.test.R | 275 ++++++++++++++++++++----------- smacpod-1.4.1/smacpod/man/kdest.Rd | 2 smacpod-1.4.1/smacpod/man/nn.Rd | 2 smacpod-1.4.1/smacpod/man/noc.Rd |only smacpod-1.4.1/smacpod/man/plot.scan.Rd | 8 smacpod-1.4.1/smacpod/man/spscan.test.Rd | 29 ++- smacpod-1.4.1/smacpod/tests |only 16 files changed, 237 insertions(+), 142 deletions(-)
Title: Easily Harvest (Scrape) Web Pages
Description: Wrappers around the 'xml2' and 'httr' packages to make it easy to
download, then manipulate, HTML and XML.
Author: Hadley Wickham [aut, cre],
RStudion [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between rvest versions 0.2.0 dated 2015-01-01 and 0.3.0 dated 2015-09-22
rvest-0.2.0/rvest/R/scrape-package.r |only rvest-0.2.0/rvest/R/structure.R |only rvest-0.2.0/rvest/R/xml-methods.R |only rvest-0.2.0/rvest/man/scrape.Rd |only rvest-0.2.0/rvest/man/xml_structure.Rd |only rvest-0.3.0/rvest/DESCRIPTION | 30 ++--- rvest-0.3.0/rvest/MD5 | 93 ++++++++--------- rvest-0.3.0/rvest/NAMESPACE | 36 ++---- rvest-0.3.0/rvest/R/deprecated.R |only rvest-0.3.0/rvest/R/encoding.R | 2 rvest-0.3.0/rvest/R/form.R | 56 +++++----- rvest-0.3.0/rvest/R/html.R | 77 ++------------ rvest-0.3.0/rvest/R/minimal-html.R | 2 rvest-0.3.0/rvest/R/parse.R | 79 ++++++++------ rvest-0.3.0/rvest/R/selectors.R | 104 +++---------------- rvest-0.3.0/rvest/R/session.R | 17 +-- rvest-0.3.0/rvest/R/table.R | 25 ++-- rvest-0.3.0/rvest/R/utils.R | 28 ----- rvest-0.3.0/rvest/R/xml.R | 32 ----- rvest-0.3.0/rvest/README.md | 16 ++ rvest-0.3.0/rvest/build/vignette.rds |binary rvest-0.3.0/rvest/demo/tripadvisor.R | 2 rvest-0.3.0/rvest/demo/zillow.R | 2 rvest-0.3.0/rvest/inst/doc/selectorgadget.R | 12 +- rvest-0.3.0/rvest/inst/doc/selectorgadget.Rmd | 9 + rvest-0.3.0/rvest/inst/doc/selectorgadget.html | 120 ++++++++-------------- rvest-0.3.0/rvest/man/encoding.Rd | 4 rvest-0.3.0/rvest/man/google_form.Rd | 2 rvest-0.3.0/rvest/man/html.Rd | 26 +++- rvest-0.3.0/rvest/man/html_form.Rd | 8 - rvest-0.3.0/rvest/man/html_nodes.Rd | 11 +- rvest-0.3.0/rvest/man/html_session.Rd | 4 rvest-0.3.0/rvest/man/html_table.Rd | 8 - rvest-0.3.0/rvest/man/html_tag.Rd |only rvest-0.3.0/rvest/man/html_text.Rd | 30 +---- rvest-0.3.0/rvest/man/jump_to.Rd | 2 rvest-0.3.0/rvest/man/minimal_html.Rd | 2 rvest-0.3.0/rvest/man/pipe.Rd | 4 rvest-0.3.0/rvest/man/pluck.Rd | 2 rvest-0.3.0/rvest/man/session_history.Rd | 2 rvest-0.3.0/rvest/man/set_values.Rd | 4 rvest-0.3.0/rvest/man/submit_form.Rd | 2 rvest-0.3.0/rvest/man/xml.Rd | 35 ------ rvest-0.3.0/rvest/tests/testthat/test-forms.R | 4 rvest-0.3.0/rvest/tests/testthat/test-selectors.R | 2 rvest-0.3.0/rvest/vignettes/selectorgadget-1.png |binary rvest-0.3.0/rvest/vignettes/selectorgadget-2.png |binary rvest-0.3.0/rvest/vignettes/selectorgadget-3.png |binary rvest-0.3.0/rvest/vignettes/selectorgadget-4.png |binary rvest-0.3.0/rvest/vignettes/selectorgadget-5.png |binary rvest-0.3.0/rvest/vignettes/selectorgadget.Rmd | 9 + 51 files changed, 356 insertions(+), 547 deletions(-)
Title: Image Registration Using the NiftyReg Library
Description: Provides an R interface to the NiftyReg image registration tools <http://sourceforge.net/projects/niftyreg/>. Linear and nonlinear registration are supported, in two and three dimensions.
Author: Jon Clayden, based on original code by Marc Modat, Pankaj Daga and others
Maintainer: Jon Clayden <code@clayden.org>
Diff between RNiftyReg versions 2.0.0 dated 2015-09-15 and 2.0.1 dated 2015-09-22
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 6 ++++++ src/reg-lib/_reg_aladin.h | 4 ++-- src/reg-lib/_reg_base.cpp | 2 +- src/reg-lib/cpu/_reg_blockMatching.cpp | 5 +++++ src/reg-lib/cpu/_reg_lncc.cpp | 12 ++++++++++++ src/reg-lib/cpu/_reg_resampling.cpp | 4 ++-- 8 files changed, 39 insertions(+), 16 deletions(-)
Title: Read and Write MAT Files and Call MATLAB from Within R
Description: Methods readMat() and writeMat() for reading and writing MAT files. For user with MATLAB v6 or newer installed (either locally or on a remote host), the package also provides methods for controlling MATLAB (trademark) via R and sending and retrieving data between R and MATLAB.
Author: Henrik Bengtsson [aut, cre, cph], Andy Jacobson [ctb] (Internal MAT v4 reader), Jason Riedy [ctb] (Support for reading compressed files (via 'Rcompression'), sparse matrices and UTF-encoded strings.)
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between R.matlab versions 3.2.0 dated 2015-02-25 and 3.3.0 dated 2015-09-22
DESCRIPTION | 12 MD5 | 29 +- NAMESPACE | 8 NEWS | 14 + R/Matlab.R | 67 ++-- R/readMat.R | 76 ++--- R/writeMat.R | 40 +- inst/externals/MatlabServer.m | 353 ++++++++++++++------------ inst/mat-files/SparseMatrix,empty.mat |only man/1._The_MATLAB_server_running_in_MATLAB.Rd | 353 ++++++++++++++------------ man/R.matlab-package.Rd | 2 man/evaluate.Matlab.Rd | 15 - man/open.Matlab.Rd | 3 man/readMat.Rd | 9 tests/readMat.R | 40 ++ tests/writeMat.R | 16 - 16 files changed, 585 insertions(+), 452 deletions(-)
Title: Data Exchange Between R and LabKey Server
Description: Allow a user to discover, query and modify data from a LabKey Server.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 2.1.127 dated 2015-02-17 and 2.1.128 dated 2015-09-22
DESCRIPTION | 10 ++++------ MD5 | 26 +++++++++++++------------- NAMESPACE | 2 ++ NEWS | 3 +++ R/labkey.getFolders.R | 2 +- R/labkey.importRows.R | 3 ++- R/labkey.insertRows.R | 3 ++- R/labkey.selectRows.R | 2 +- R/schemaObjects.R | 6 +++--- build/vignette.rds |binary man/Rlabkey-package.Rd | 5 ++--- man/labkey.getQueries.Rd | 1 - man/labkey.getSchemas.Rd | 1 - man/makeFilter.Rd | 1 - 14 files changed, 33 insertions(+), 32 deletions(-)
Title: Entrez in R
Description: Provides an R interface to the NCBI's EUtils API
allowing users to search databases like GenBank and PubMed, process the
results of those searches and pull data into their R sessions.
Author: David Winter [aut, cre],
Scott Chamberlain [ctb],
Han Guangchun [ctb]
Maintainer: David Winter <david.winter@gmail.com>
Diff between rentrez versions 0.4.2 dated 2015-06-26 and 1.0.0 dated 2015-09-22
DESCRIPTION | 31 - MD5 | 86 +-- NAMESPACE | 24 NEWS | 20 R/base.r | 122 +++- R/entrez_citmatch.r | 4 R/entrez_fetch.r | 49 + R/entrez_global_query.r | 3 R/entrez_info.r | 82 +-- R/entrez_link.r | 233 +++++++- R/entrez_post.r | 41 - R/entrez_search.r | 100 ++- R/entrez_summary.r | 221 +++----- R/help.r | 4 R/parse_pubmed_xml.r | 61 +- build/vignette.rds |binary inst/doc/rentrez_tutorial.R | 249 ++++++--- inst/doc/rentrez_tutorial.Rmd | 689 ++++++++++++++++++++----- inst/doc/rentrez_tutorial.html | 1101 ++++++++++++++++++++++++----------------- man/entrez_citmatch.Rd | 6 man/entrez_db_links.Rd | 16 man/entrez_db_searchable.Rd | 11 man/entrez_db_summary.Rd | 2 man/entrez_dbs.Rd | 4 man/entrez_fetch.Rd | 34 + man/entrez_global_query.Rd | 4 man/entrez_info.Rd | 10 man/entrez_link.Rd | 61 +- man/entrez_post.Rd | 29 - man/entrez_search.Rd | 45 + man/entrez_summary.Rd | 59 +- man/extract_from_esummary.Rd |only man/linkout_urls.Rd |only man/parse_pubmed_xml.Rd | 13 man/rentrez.Rd | 4 tests/test-all.R | 10 tests/testthat/test_fetch.r | 49 - tests/testthat/test_info.r | 47 + tests/testthat/test_link.r | 74 ++ tests/testthat/test_parse.r | 35 - tests/testthat/test_post.r |only tests/testthat/test_query.r | 8 tests/testthat/test_search.r | 33 - tests/testthat/test_summary.r |only tests/testthat/test_webenv.r | 16 vignettes/rentrez_tutorial.Rmd | 689 ++++++++++++++++++++----- 46 files changed, 3042 insertions(+), 1337 deletions(-)
Title: Simplify Parameters
Description: An interface to simplify organizing parameters used in a package, using external configuration files.
This attempts to provide a cleaner alternative to options().
Author: Sahil Seth [aut, cre],
Yihui Xie [ctb] (kable from knitr R/table.R)
Maintainer: Sahil Seth <me@sahilseth.com>
Diff between params versions 0.2.5 dated 2015-08-22 and 0.3.0 dated 2015-09-22
DESCRIPTION | 9 ++--- MD5 | 26 ++++++++-------- NEWS.md | 10 ++++++ R/conf.R | 69 +++++++++++++++++++++++++++++++++--------- R/opts.R | 18 +++++++---- R/pkg-opts.R | 63 ++++++++++++++++++++++++++------------ R/read-sheet.R | 2 - R/zzz.R | 4 +- README.md | 81 +++++++++++++++++++++++++------------------------- inst/conf/params.conf | 1 man/opts.Rd | 2 - man/params.Rd | 56 ++++++++++++++++++++++++---------- man/parse_opts.Rd | 8 +++- tests |only 14 files changed, 227 insertions(+), 122 deletions(-)
Title: Nonparametric and Stochastic Efficiency and Productivity
Analysis
Description: Provides a variety of tools for nonparametric and parametric efficiency measurement.
Author: Oleg Badunenko [aut, cre],
Yaryna Kolomiytseva [aut],
Pavlo Mozharovskyi [aut]
Maintainer: Oleg Badunenko <obadunen@uni-koeln.de>
Diff between npsf versions 0.1.4 dated 2015-09-20 and 0.1.6 dated 2015-09-22
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- man/npsf-package.Rd | 4 ++-- src/libglpk/minisat/minisat.c | 35 ++++++++++++++++++++++++++++------- src/nonradial.c | 2 +- 5 files changed, 39 insertions(+), 18 deletions(-)
More information about MaxentVariableSelection at CRAN
Permanent link
Title: Tools for Multivariate Nonparametrics
Description: Tools for multivariate nonparametrics, as location tests based on marginal ranks, spatial median and spatial signs computation, Hotelling's T-test, estimates of shape are implemented.
Author: Klaus Nordhausen, Seija Sirkia, Hannu Oja, David E. Tyler
Maintainer: Klaus Nordhausen <klaus.nordhausen@utu.fi>
Diff between ICSNP versions 1.0-9 dated 2012-03-29 and 1.1-0 dated 2015-09-22
DESCRIPTION | 15 +++++++-------- MD5 | 28 ++++++++++++++-------------- NAMESPACE | 1 + R/duembgen.shape.R | 2 +- R/duembgen.shape.wt.R | 4 ++-- R/frobenius.norm.R | 2 +- R/internals.R | 4 ++++ R/mat.sqrt.R | 7 ++++++- R/symm.huber.R | 2 +- R/symm.huber.wt.R | 2 +- data/pulmonary.rda |binary inst/ChangeLog | 5 +++++ man/ICSNP-package.Rd | 10 ++++++---- man/LASERI.Rd | 2 +- man/tyler.shape.Rd | 2 +- 15 files changed, 51 insertions(+), 35 deletions(-)
Title: R Interface for H2O
Description: R scripting functionality for H2O, the open source
math engine for big data that computes parallel distributed
machine learning algorithms such as generalized linear models,
gradient boosting machines, random forests, and neural networks
(deep learning) within various cluster environments.
Author: Spencer Aiello, Tom Kraljevic and Petr Maj, with contributions from the
H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>
Diff between h2o versions 3.2.0.1 dated 2015-09-14 and 3.2.0.3 dated 2015-09-22
DESCRIPTION | 6 +-- MD5 | 14 ++++----- R/deeplearning.R | 9 +++-- R/models.R | 81 +++++++++++++++++++++++++++++++++++++++++++++++------ R/parse.R | 6 +++ inst/buildnum.txt | 2 - man/h2o-package.Rd | 4 +- man/h2o.anomaly.Rd | 8 +++-- 8 files changed, 103 insertions(+), 27 deletions(-)
Title: Tests of Fit for some Probability Distributions
Description: Tests of fit for Gamma, inverse Gaussian, normal, multivariate normal and generalized Pareto distributions. Parameter estimators for the Gamma, inverse Gaussian and generalized Pareto distributions.
Author: Elizabeth Gonzalez-Estrada, Jose A. Villasenor-Alva
Maintainer: Elizabeth Gonzalez-Estrada <egonzalez@colpos.mx>
Diff between goft versions 1.1 dated 2015-03-24 and 1.2 dated 2015-09-22
DESCRIPTION | 12 +-- MD5 | 31 +++++--- NAMESPACE | 6 - R/gamma.fit.R |only R/gamma.test.R | 1 R/gpd.fit.R |only R/gpd.test-internal.R | 182 +++++++++++++++++++++++++------------------------- R/gpd.test.R | 54 +++++++------- R/ig.fit.R |only R/ig.test-internal.R |only R/ig.test.R |only inst/history.txt | 5 + man/gamma.fit.Rd |only man/gamma.test.Rd | 11 +-- man/goats.Rd | 2 man/gpd.fit.Rd |only man/gpd.test.Rd | 24 +++--- man/ig.fit.Rd |only man/ig.test.Rd |only man/mvShapiro.Test.Rd | 16 ++-- man/normal.Rd | 12 +-- 21 files changed, 183 insertions(+), 173 deletions(-)
Title: Functions to Automate Downloading Geospatial Data Available from
Several Federated Data Sources
Description: Functions to automate downloading geospatial data available from several federated data sources (mainly sources maintained by the US Federal government). Currently, the package allows for retrieval of five datasets: The National Elevation Dataset digital elevation models (1 and 1/3 arc-second; USGS); The National Hydrography Dataset (USGS); The Soil Survey Geographic (SSURGO) database from the National Cooperative Soil Survey (NCSS), which is led by the Natural Resources Conservation Service (NRCS) under the USDA; the Global Historical Climatology Network (GHCN), coordinated by National Climatic Data Center at NOAA; and the International Tree Ring Data Bank. Additional data sources are in the works, including global DEM resources (ETOPO1, ETOPO5, ETOPO30, SRTM), global soils (HWSD), MODIS satellite data products, the National Atlas (US), Natural Earth, PRISM, and WorldClim.
Author: R. Kyle Bocinsky <bocinsky@gmail.com>
Dylan Beaudette <Dylan.Beaudette@ca.usda.gov>
Maintainer: R. Kyle Bocinsky <bocinsky@gmail.com>
Diff between FedData versions 2.0.0 dated 2015-07-08 and 2.0.1 dated 2015-09-22
DESCRIPTION | 13 +++++++------ MD5 | 20 ++++++++++---------- NAMESPACE | 37 +++++++++++++++++++------------------ R/GHCN_FUNCTIONS.R | 4 ++++ R/ITRDB_FUNCTIONS.R | 10 ++++++++-- R/NED_FUNCTIONS.R | 5 ++++- R/NHD_FUNCTIONS.R | 5 +++++ R/SSURGO_FUNCTIONS.R | 8 +++++++- R/UTILITY_FUNCTIONS.R | 8 ++++++++ inst/FedDataTester.R | 2 +- man/FedData-package.Rd | 4 ++-- 11 files changed, 75 insertions(+), 41 deletions(-)
Title: Creates a Model Matrix via Feature Hashing with a Formula
Interface
Description: Feature hashing, also called as the hashing trick, is a method to transform
features of a instance to a vector. Thus, it is a method to transform a real dataset to a matrix.
Without looking up the indices in an associative array,
it applies a hash function to the features and uses their hash values as indices directly.
The method of feature hashing in this package was proposed in Weinberger et al. (2009).
The hashing algorithm is the murmurhash3 from the digest package.
Please see the README in https://github.com/wush978/FeatureHashing for more information.
Author: Wush Wu [aut, cre],
Michael Benesty [aut, ctb]
Maintainer: Wush Wu <wush978@gmail.com>
Diff between FeatureHashing versions 0.9 dated 2015-03-29 and 0.9.1 dated 2015-09-22
Changelog | 10 DESCRIPTION | 13 MD5 | 61 ++- NAMESPACE | 10 R/RcppExports.R | 9 R/hashed.model.matrix.R | 48 ++- R/zzz.R | 12 README.md | 22 + build |only inst/doc |only man/CSCMatrix-class.Rd | 2 man/hash.mapping.Rd | 2 man/hash.size.Rd | 2 man/hashed.model.matrix.Rd | 20 - man/intToRaw.Rd | 2 man/ipinyou.Rd | 2 man/simulate.split.Rd | 2 man/test.tag.Rd | 2 src/RcppExports.cpp | 18 - src/bswap_32.cpp |only src/bswap_32.h |only src/hash_function.h |only src/hash_internal.cpp | 38 ++ src/hashed_model_matrix.cpp | 604 +-------------------------------------- src/hashed_model_matrix.h |only src/vector_converter.h |only tests/test-as-dgCMatrix.R | 8 tests/test-existence_collision.R |only tests/test-hash.mapping.R | 4 tests/test-hashing.R | 14 tests/test-memcheck.R | 2 tests/test-progress_bar.R |only vignettes |only 33 files changed, 245 insertions(+), 662 deletions(-)
More information about FeatureHashing at CRAN
Permanent link
Title: Udunits-2 Bindings for R
Description: Provides simple bindings to version 2 of Unidata's udunits library.
Author: James Hiebert <hiebert@uvic.ca>
Maintainer: James Hiebert <hiebert@uvic.ca>
Diff between udunits2 versions 0.8 dated 2015-08-06 and 0.8.1 dated 2015-09-22
DESCRIPTION | 8 ++++---- MD5 | 7 ++++--- configure | 27 +++++++++++---------------- configure.ac | 27 +++++++++++---------------- src/Makevars.win |only 5 files changed, 30 insertions(+), 39 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-03-14 0.2.0
2013-11-13 0.1.5
Title: Local Principal Curve Methods
Description: Fitting multivariate data patterns with local principal curves; including simple tools for data compression (projection), bandwidth selection, and measuring goodness-of-fit.
Author: Jochen Einbeck and Ludger Evers
Maintainer: Jochen Einbeck <jochen.einbeck@durham.ac.uk>
Diff between LPCM versions 0.44-8 dated 2013-11-16 and 0.45-0 dated 2015-09-22
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- R/followx.R | 2 +- R/kernels.and.distances.R | 3 ++- R/plot.lpc.R | 4 ++-- data/calspeedflow.rda |binary data/gaia.rda |binary data/gvessel.rda |binary man/coverage.Rd | 3 ++- man/followx.Rd | 2 +- man/lpc.control.Rd | 9 ++++++--- 11 files changed, 29 insertions(+), 24 deletions(-)
Title: Fragment Analysis in R
Description: Performs fragment analysis using genetic data coming from capillary electrophoresis machines. These are files with FSA extension which stands for FASTA-type file and contains DNA fragment intensities read by machinery. In addition to visualization, it performs automatic scoring of SSRs (Sample Sequence Repeats; a type of genetic marker very common across the genome) and other type of PCR markers (standing for Polymerase Chain Reaction) in biparental populations such as F1, F2, BC (backcross), and diversity panels (collection of genetic diversity).
Author: Giovanny Covarrubias-Pazaran, Luis Diaz-Garcia, Brandon Schlautman, Walter Salazar, Juan Zalapa.
Maintainer: Giovanny Covarrubias-Pazaran <covarrubiasp@wisc.edu>
Diff between Fragman versions 1.0 dated 2015-09-18 and 1.0.1 dated 2015-09-22
Fragman-1.0.1/Fragman/DESCRIPTION | 6 +++--- Fragman-1.0.1/Fragman/MD5 | 22 +++++++++++----------- Fragman-1.0.1/Fragman/R/overview.R | 2 +- Fragman-1.0.1/Fragman/R/overview2.R | 2 +- Fragman-1.0.1/Fragman/R/score.easy.R | 2 +- Fragman-1.0.1/Fragman/inst/CITATION | 12 ++++++------ Fragman-1.0.1/Fragman/man/Fragman-package.Rd |only Fragman-1.0.1/Fragman/man/ladder.info.attach.Rd | 2 +- Fragman-1.0.1/Fragman/man/lapply_pb.Rd | 2 +- Fragman-1.0.1/Fragman/man/overview2.Rd | 2 +- Fragman-1.0.1/Fragman/man/score.easy.Rd | 2 +- Fragman-1.0.1/Fragman/man/storing.inds.Rd | 2 +- Fragman-1.0/Fragman/man/Fragma-package.Rd |only 13 files changed, 28 insertions(+), 28 deletions(-)
Title: Solvers for Boundary Value Problems of Differential Equations
Description: Functions that solve boundary value problems ('BVP') of systems of ordinary
differential equations ('ODE') and differential algebraic equations ('DAE').
The functions provide an interface to the FORTRAN functions
'twpbvpC', 'colnew/colsys', and an R-implementation of the shooting method.
Author: Karline Soetaert <karline.soetaert@nioz.nl>,
Jeff Cash <j.cash@imperial.ac.uk>,
Francesca Mazzia <mazzia@dm.uniba.it>
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between bvpSolve versions 1.2.4 dated 2013-08-15 and 1.3.2 dated 2015-09-22
DESCRIPTION | 24 MD5 | 59 - NAMESPACE | 10 R/bvpsolver.R | 2106 +++++++++++++++++++++------------------- R/forcings.R | 10 build |only inst/CITATION |only inst/doc/bvpSolve.R | 30 inst/doc/bvpSolve.Rnw | 22 inst/doc/bvpSolve.pdf |binary inst/doc/bvpTests.R | 2 inst/doc/bvpTests.Rnw | 10 inst/doc/bvpTests.pdf |binary inst/doc/examples/Mathieu.R | 1 inst/doc/examples/Measel.R | 75 - inst/doc/examples/swirl.R | 22 inst/doc/opuscula_math_3424.pdf |only man/bvpSolve.Rd | 5 man/bvpcol.Rd | 14 man/bvptwp.Rd | 15 man/diagnostics.Rd | 2 src/bvpSolve.h | 30 src/call_acdc.c | 194 ++- src/call_colmodsys.c | 219 +++- src/call_colnew.c | 381 +++++-- src/call_twpbvp.c | 200 +++ src/coldaeR.f | 34 src/colmodR.f | 1 src/twpbvpa.f | 41 src/twpbvpc.f | 14 vignettes/bvpSolve.Rnw | 22 vignettes/bvpTests.Rnw | 10 32 files changed, 2186 insertions(+), 1367 deletions(-)
Title: The Short-Term and Long-Term Hazard Ratio Model for Survival
Data
Description: Various inference procedures for a two-sample semi-parametric model that can accommodate a flexible range of hazard ratio patterns. This model contains the proportional hazards model and the proportional odds model as sub-models, and accommodates non-proportional hazards situations to the extreme of having crossing hazards and crossing survivor functions. Overall, this package has four major functions: 1) the parameter estimation, namely short-term and long-term hazard ratio parameters; 2) 95 percent and 90 percent point-wise confidence intervals and simultaneous confidence bands for the hazard ratio function; 3) p-value of the adaptive weighted log-rank test; 4) p-values of two lack-of-fit tests for the model. See the included "read_me_first.pdf" for brief instructions. In this version (1.1), there is no need to sort the data before applying this package.
Author: Junlong Sun and Song Yang
Maintainer: Junlong Sun <junlong.sun@gmail.com>
Diff between YPmodel versions 1.1 dated 2014-02-17 and 1.2 dated 2015-09-22
DESCRIPTION | 14 - MD5 | 102 ++++----- NAMESPACE | 28 ++ R/YPmodel.IntervalBands.R | 146 ++++++------- R/YPmodel.R | 10 R/YPmodel.adlgrk.R | 66 +++--- R/YPmodel.default.R | 48 ++-- R/YPmodel.estimate.R | 312 ++++++++++++++--------------- R/YPmodel.inputData.R | 78 +++---- R/YPmodel.lackfittest.R | 138 ++++++------- R/YPmodel.setParameter.R | 68 +++--- R/YPmodel.setRandom.R | 44 ++-- R/fun.Rjudge.R | 72 +++--- R/fun.YPmodelOriginal.R | 246 +++++++++++------------ R/fun.adlgrk.R | 200 +++++++++---------- R/fun.classCheck.R | 20 - R/fun.cumsum.R | 70 +++--- R/fun.errorMessage.R | 38 +-- R/fun.flipud.R | 82 +++---- R/fun.generateParameters.R | 336 +++++++++++++++---------------- R/fun.hazardRationEstimation.R | 348 ++++++++++++++++----------------- R/fun.hcvxitr1.R | 106 +++++----- R/fun.internalParameters.R | 112 +++++----- R/fun.martint.R | 298 ++++++++++++++-------------- R/fun.newBest.R | 342 ++++++++++++++++---------------- R/fun.ntitr0.R | 68 +++--- R/fun.oldp2.R | 140 ++++++------- R/fun.survf.R | 400 +++++++++++++++++++------------------- R/fun.variance.R | 130 ++++++------ R/fun.zeroORone.R | 48 ++-- R/plot.YPmodel.IntervalBands.R | 146 ++++++------- R/plot.YPmodel.R | 34 +-- R/plot.YPmodel.estimate.R |only R/plot.YPmodel.lackfittest.R |only R/plot.YPmodel.martint.R | 62 ++--- R/plot.YPmodel.survf.R | 68 +++--- R/plot.YPmodel.survivor.R | 204 +++++++++---------- R/print.YPmodel.R | 44 ++-- R/summary.YPmodel.IntervalBands.R | 78 +++---- R/summary.YPmodel.R | 44 ++-- R/summary.YPmodel.adlgrk.R | 24 +- R/summary.YPmodel.estimate.R | 92 ++++---- R/summary.YPmodel.lackfittest.R | 48 ++-- R/summary.YPmodel.overall.R | 54 ++--- data/gastric.rda |binary inst/doc/read_me_first.pdf |binary man/YPmodel-internal.Rd | 1 man/YPmodel-package.Rd | 14 - man/YPmodel.IntervalBands.Rd | 12 - man/YPmodel.Rd | 17 - man/YPmodel.adlgrk.Rd | 8 man/YPmodel.estimate.Rd | 9 man/YPmodel.lackfittest.Rd | 9 53 files changed, 2557 insertions(+), 2521 deletions(-)
Title: Competing Risks Regression Models with Covariate-Adjusted
Censoring Weights
Description: Estimation and regression modeling of subdistribution functions for competing risks data with adjustment for covariate-dependent censoring, as described in He et al. (2013).
Author: Peng He
Maintainer: Peng He <saturnhp@gmail.com>
Diff between wtcrsk versions 1.3 dated 2014-05-05 and 1.4 dated 2015-09-22
DESCRIPTION | 12 ++-- MD5 | 8 +-- NAMESPACE | 6 ++ R/wrap.R | 121 ++++++++++++++++---------------------------------- man/wtcrsk-package.Rd | 10 ++-- 5 files changed, 60 insertions(+), 97 deletions(-)
Title: A Collection of Handy, Useful Functions
Description: A set of little functions that have been found useful to do little odds and ends such as plotting the results of K-means clustering, substituting special text characters, viewing parts of a data.frame, constructing formulas from text and building design and response matrices.
Author: Jared P. Lander
Maintainer: Jared P. Lander <packages@jaredlander.com>
Diff between useful versions 1.1.8 dated 2014-01-20 and 1.1.9 dated 2015-09-22
useful-1.1.8/useful/NEWS |only useful-1.1.8/useful/README |only useful-1.1.9/useful/DESCRIPTION | 16 +- useful-1.1.9/useful/LICENSE | 2 useful-1.1.9/useful/MD5 | 137 ++++++++++++-------- useful-1.1.9/useful/NAMESPACE | 53 ++++++- useful-1.1.9/useful/R/ColumnReorder.r |only useful-1.1.9/useful/R/buildFormula.r | 1 useful-1.1.9/useful/R/buildMatrix.r | 3 useful-1.1.9/useful/R/checkCase.r |only useful-1.1.9/useful/R/classCheck.r |only useful-1.1.9/useful/R/coordinates.r |only useful-1.1.9/useful/R/corner.r | 76 +++++++---- useful-1.1.9/useful/R/hartigan.r | 1 useful-1.1.9/useful/R/impute.r |only useful-1.1.9/useful/R/indices.r |only useful-1.1.9/useful/R/kmeansPlotting.r | 7 - useful-1.1.9/useful/R/reclass.r |only useful-1.1.9/useful/R/regex.r | 1 useful-1.1.9/useful/R/subMultiple.r |only useful-1.1.9/useful/R/subspecials.r | 9 - useful-1.1.9/useful/R/tsPlot.r | 24 ++- useful-1.1.9/useful/R/useful-package.r | 2 useful-1.1.9/useful/README.md |only useful-1.1.9/useful/man/ComputeHartigan.Rd | 14 +- useful-1.1.9/useful/man/FitKMeans.Rd | 41 ++--- useful-1.1.9/useful/man/ForceDataFrame.Rd | 8 - useful-1.1.9/useful/man/MapToInterval.Rd | 11 + useful-1.1.9/useful/man/PlotHartigan.Rd | 34 ++-- useful-1.1.9/useful/man/WhichCorner.Rd |only useful-1.1.9/useful/man/binary.flip.Rd | 4 useful-1.1.9/useful/man/bottomleft.Rd | 18 +- useful-1.1.9/useful/man/bottomright.Rd | 18 +- useful-1.1.9/useful/man/build.formula.Rd | 10 - useful-1.1.9/useful/man/build.x.Rd | 17 +- useful-1.1.9/useful/man/build.y.Rd | 9 - useful-1.1.9/useful/man/cart2pol.Rd |only useful-1.1.9/useful/man/classdf.Rd |only useful-1.1.9/useful/man/colsToFront.Rd |only useful-1.1.9/useful/man/compare.list.Rd | 10 - useful-1.1.9/useful/man/constant.Rd |only useful-1.1.9/useful/man/corner.Rd | 40 +++-- useful-1.1.9/useful/man/find.case.Rd |only useful-1.1.9/useful/man/fortify.acf.Rd | 9 - useful-1.1.9/useful/man/fortify.kmeans.Rd | 20 +- useful-1.1.9/useful/man/fortify.ts.Rd | 13 - useful-1.1.9/useful/man/indexToPosition.Rd |only useful-1.1.9/useful/man/interval.check.Rd | 19 +- useful-1.1.9/useful/man/left.Rd | 16 +- useful-1.1.9/useful/man/lower.case.Rd |only useful-1.1.9/useful/man/mixed.case.Rd |only useful-1.1.9/useful/man/moveToFront.Rd |only useful-1.1.9/useful/man/multiple.Rd | 15 +- useful-1.1.9/useful/man/multiple.comma.Rd | 10 - useful-1.1.9/useful/man/multiple.dollar.Rd | 10 - useful-1.1.9/useful/man/multiple.identity.Rd | 10 - useful-1.1.9/useful/man/multiple_format.Rd | 9 - useful-1.1.9/useful/man/numeric.case.Rd |only useful-1.1.9/useful/man/plot.Rd |only useful-1.1.9/useful/man/plot.acf.Rd | 12 + useful-1.1.9/useful/man/plot.kmeans.Rd | 25 +-- useful-1.1.9/useful/man/plotTimesSeries.Rd | 34 +--- useful-1.1.9/useful/man/pol2cart.Rd |only useful-1.1.9/useful/man/positionToIndex.Rd |only useful-1.1.9/useful/man/reclass.Rd |only useful-1.1.9/useful/man/right.Rd | 16 +- useful-1.1.9/useful/man/shift.column.Rd | 20 +- useful-1.1.9/useful/man/simple.impute.Rd |only useful-1.1.9/useful/man/simple.impute.data.frame.Rd |only useful-1.1.9/useful/man/simple.impute.default.Rd |only useful-1.1.9/useful/man/simple.impute.tbl_df.Rd |only useful-1.1.9/useful/man/subMultiple.Rd |only useful-1.1.9/useful/man/subOut.Rd | 20 +- useful-1.1.9/useful/man/subSpecials.Rd | 26 +-- useful-1.1.9/useful/man/topleft.Rd | 18 +- useful-1.1.9/useful/man/topright.Rd | 18 +- useful-1.1.9/useful/man/ts.plotter.Rd | 14 +- useful-1.1.9/useful/man/upper.case.Rd |only useful-1.1.9/useful/man/useful.Rd | 2 useful-1.1.9/useful/man/vplayout.Rd | 9 - useful-1.1.9/useful/tests |only 81 files changed, 498 insertions(+), 413 deletions(-)
Title: Unified Handling of Graphics Devices
Description: Functions for creating plots and image files in a unified way regardless of output format (EPS, PDF, PNG, SVG, TIFF, WMF, etc.). Default device options as well as scales and aspect ratios are controlled in a uniform way across all device types. Switching output format requires minimal changes in code. This package is ideal for large-scale batch processing, because it will never leave open graphics devices or incomplete image files behind, even on errors or user interrupts.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between R.devices versions 2.13.0 dated 2015-02-22 and 2.13.1 dated 2015-09-22
R.devices-2.13.0/R.devices/.Rinstignore |only R.devices-2.13.1/R.devices/DESCRIPTION | 14 - R.devices-2.13.1/R.devices/MD5 | 50 ++--- R.devices-2.13.1/R.devices/NAMESPACE | 5 R.devices-2.13.1/R.devices/NEWS | 8 R.devices-2.13.1/R.devices/R/capabilitiesX11.R |only R.devices-2.13.1/R.devices/R/devOptions.R | 21 +- R.devices-2.13.1/R.devices/R/toNNN.R | 2 R.devices-2.13.1/R.devices/build/vignette.rds |binary R.devices-2.13.1/R.devices/inst/doc/R.devices-overview.pdf |binary R.devices-2.13.1/R.devices/man/R.devices-package.Rd | 4 R.devices-2.13.1/R.devices/man/capabilitiesX11.Rd |only R.devices-2.13.1/R.devices/tests/DevEvalFileProduct.R | 4 R.devices-2.13.1/R.devices/tests/DevEvalProduct.R | 4 R.devices-2.13.1/R.devices/tests/capabilitiesX11.R |only R.devices-2.13.1/R.devices/tests/dataURI.R | 4 R.devices-2.13.1/R.devices/tests/devAll.R | 4 R.devices-2.13.1/R.devices/tests/devDump.R | 4 R.devices-2.13.1/R.devices/tests/devEval,error.R | 128 ++++++------- R.devices-2.13.1/R.devices/tests/devEval.R | 39 +++ R.devices-2.13.1/R.devices/tests/devIndexOf.R | 4 R.devices-2.13.1/R.devices/tests/devIsInteractive.R | 3 R.devices-2.13.1/R.devices/tests/devIsOpen.R | 3 R.devices-2.13.1/R.devices/tests/devList.R | 4 R.devices-2.13.1/R.devices/tests/devOptions.R | 21 ++ R.devices-2.13.1/R.devices/tests/devSet.R | 5 R.devices-2.13.1/R.devices/tests/devTypeName.R | 4 R.devices-2.13.1/R.devices/tests/favicon.R |only R.devices-2.13.1/R.devices/tests/withPar.R | 3 29 files changed, 234 insertions(+), 104 deletions(-)