Title: R Interface to FOAAS
Diff between rfoaas versions 0.0.4.20141212 dated 2014-12-13 and 0.0.4.20141224 dated 2014-12-24
Description: R access to the FOAAS (F... Off As A Service) web service
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel
ChangeLog | 8 ++++++
DESCRIPTION | 8 +++---
MD5 | 10 ++++----
R/foaas.R | 62 +++++++++++++++++++++++++++-----------------------
README.md | 20 ++++++++++++++--
man/rfoaas-package.Rd | 15 ++++++++++++
6 files changed, 84 insertions(+), 39 deletions(-)
Title: Weather Forecast Verification Utilities.
Diff between verification versions 1.40 dated 2014-07-09 and 1.41 dated 2014-12-24
Description: This package contains utilities for verification of
discrete,continuous, probabilistic forecasts and forecast
expressed as parametric distributions.
Author: NCAR - Research Applications Laboratory
Maintainer: Eric Gilleland
DESCRIPTION | 6 +++---
MD5 | 6 +++---
R/table.stats.R | 12 ++++++------
R/zzz.R | 2 +-
4 files changed, 13 insertions(+), 13 deletions(-)
Title: An Introduction to Statistical Modeling of Extreme Values
Diff between ismev versions 1.39 dated 2012-11-13 and 1.40 dated 2014-12-24
Description: Functions to support the computations carried out in
`An Introduction to Statistical Modeling of Extreme Values' by
Stuart Coles. The functions may be divided into the following
groups; maxima/minima, order statistics, peaks over thresholds
and point processes.
Author: Original S functions written by Janet E. Heffernan with R port and R
documentation provided by Alec G. Stephenson.
Maintainer: Eric Gilleland
DESCRIPTION | 21 +-
MD5 | 33 +--
NAMESPACE | 2
R/game.R | 490 ++++++++++++++++++++++++++++++++------------------
data/dowjones.rda |binary
data/euroex.rda |binary
data/exchange.rda |binary
data/fremantle.rda |binary
data/portpirie.rda |binary
data/rain.rda |binary
data/venice.rda |binary
data/wavesurge.rda |binary
data/wind.rda |binary
data/wooster.rda |binary
demo/00Index | 1
demo/game-demo.R |only
man/game.Rd | 64 +++---
man/ismev-internal.Rd | 5
18 files changed, 385 insertions(+), 231 deletions(-)
Title: Digital PCR Analysis
Diff between dpcR versions 0.1.3.1 dated 2014-10-07 and 0.1.3.2 dated 2014-12-24
Description: Analysis, visualisation and simulation of digital PCR experiments.
Author: Michal Burdukiewicz [cre, aut],
Stefan Roediger [aut]
Maintainer: Michal Burdukiewicz
CHANGELOG | 73 ++---
DESCRIPTION | 35 +-
MD5 | 193 ++++++-------
NAMESPACE | 95 +++---
R/AUCtest.R | 136 ++++-----
R/adpcr-class.R | 135 +++++----
R/adpcr2ppp.R | 149 +++++-----
R/binarize.R |only
R/bind_dpcr.R | 284 +++++++++----------
R/bioamp.R | 150 +++++-----
R/calc_breaks.R | 24 -
R/calc_lambda.R | 38 +-
R/compare_dens.R | 122 ++++----
R/count_test-class.R | 207 +++++++++-----
R/create_dpcr.R | 140 ++++-----
R/ddpcr-class.R | 114 ++++---
R/dpcR-package.R | 132 ++++-----
R/dpcr_calculator.R | 34 +-
R/dpcr_density.R | 306 ++++++++++-----------
R/dpcr_density_gui.R | 26 -
R/extract_dpcr.R | 112 +++----
R/fit_adpcr.R | 62 ++--
R/fl.R | 2
R/get_k_n.R | 24 -
R/limit_cq.R | 332 +++++++++++------------
R/many_peaks.R | 38 +-
R/moments.R | 272 +++++++++---------
R/num2int.R | 40 +-
R/pds.R | 216 +++++++--------
R/pds_raw.R | 268 +++++++++---------
R/plot_distr.R | 92 +++---
R/plot_panel.R | 316 +++++++++++----------
R/plot_vf_circ.R | 6
R/plot_vic_fam.R | 260 +++++++++---------
R/print_summary.R | 44 +--
R/qpcr_analyser.R | 320 +++++++++++-----------
R/qpcrpp.R | 430 ++++++++++++++---------------
R/rtadpcr.R | 62 ++--
R/safe_efficiency.R | 20 -
R/show_dpcr.R | 86 ++---
R/sim_adpcr.R | 202 ++++++--------
R/sim_ddpcr.R | 182 ++++++------
R/simulations.R | 128 ++++----
R/summary_dpcr.R | 213 +++++++-------
R/test_counts.R | 214 +++++++-------
R/test_counts_gui.R |only
R/test_panel.R | 120 ++++----
R/test_peaks.R | 210 +++++++-------
R/test_ratio.R | 306 ++++++++++-----------
R/valid_amp.R | 10
R/y_val_conf.R | 26 -
README.md | 30 +-
build/vignette.rds |binary
data/datalist | 6
data/many_peaks.rda |binary
data/pds.rda |binary
data/pds_raw.rda |binary
inst/doc/overview.R | 61 ++--
inst/doc/overview.Rmd | 123 +++++---
inst/doc/overview.html | 590 ++++++++++++++++++++++-------------------
inst/dpcr_density_gui/server.R | 146 +++++-----
inst/dpcr_density_gui/ui.R | 48 +--
inst/test_counts_gui |only
man/adpcr-class.Rd | 106 ++++---
man/adpcr2ppp.Rd | 120 ++++----
man/binarize.Rd |only
man/bind_dpcr-methods.Rd | 128 ++++----
man/bioamp.Rd | 100 +++---
man/compare_dens.Rd | 70 ++--
man/count_test-class.Rd | 117 ++++----
man/create_dpcr.Rd | 130 ++++-----
man/ddpcr-class.Rd | 101 +++----
man/dpcR-package.Rd | 120 ++++----
man/dpcr_density.Rd | 256 ++++++++---------
man/dpcr_density_gui.Rd | 44 +--
man/extract_dpcr.Rd | 110 +++----
man/limit_cq.Rd | 188 ++++++-------
man/many_peaks.Rd | 40 +-
man/moments-methods.Rd | 144 +++++-----
man/num2int.Rd | 42 +-
man/pds.Rd | 232 ++++++++--------
man/pds_raw.Rd | 284 +++++++++----------
man/plot.qpcrpp.Rd | 82 ++---
man/plot_panel.Rd | 221 +++++++--------
man/plot_vic_fam.Rd | 142 ++++-----
man/qpcr2pp.Rd | 176 ++++++------
man/qpcr_analyser.Rd | 222 +++++++--------
man/qpcrpp-class.Rd | 78 ++---
man/rtadpcr-class.Rd | 70 ++--
man/show-methods.Rd | 78 ++---
man/sim_adpcr.Rd | 229 +++++++--------
man/sim_ddpcr.Rd | 170 +++++------
man/summary-methods.Rd | 176 ++++++------
man/test_counts.Rd | 116 +++++---
man/test_counts_gui.Rd |only
man/test_panel.Rd | 168 +++++------
man/test_peaks.Rd | 170 +++++------
man/test_ratio.Rd | 198 ++++++-------
vignettes/overview.Rmd | 123 +++++---
99 files changed, 6554 insertions(+), 6207 deletions(-)
Title: Translate CSS Selectors to XPath Expressions
Diff between selectr versions 0.2-2 dated 2014-02-21 and 0.2-3 dated 2014-12-24
Description: Translates a CSS3 selector into an equivalent XPath
expression. This allows us to use CSS selectors when working with
the XML package as it can only evaluate XPath expressions. Also
provided are convenience functions useful for using CSS selectors on
XML nodes. This package is a port of the Python package "cssselect"
(http://packages.python.org/cssselect/).
Author: Simon Potter [aut, trl, cre],
Simon Sapin [aut],
Ian Bicking [aut]
Maintainer: Simon Potter
selectr-0.2-2/selectr/inst/tests |only
selectr-0.2-3/selectr/DESCRIPTION | 14 ++--
selectr-0.2-3/selectr/MD5 | 43 +++++++------
selectr-0.2-3/selectr/R/main.R | 31 +++-------
selectr-0.2-3/selectr/R/parser.R | 2
selectr-0.2-3/selectr/R/xpath.R | 80 ++++++++++++++++++++------
selectr-0.2-3/selectr/README.md |only
selectr-0.2-3/selectr/inst/NEWS.Rd | 26 ++++++++
selectr-0.2-3/selectr/inst/demos |only
selectr-0.2-3/selectr/man/querySelectorAll.Rd | 2
selectr-0.2-3/selectr/tests/test-all.R | 2
selectr-0.2-3/selectr/tests/testthat |only
12 files changed, 134 insertions(+), 66 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-12-21 1.0.0
Title: A Modification of Fleiss' Kappa in case of Nominal and Ordinal
Variables
Diff between raters versions 1.1 dated 2014-03-20 and 2.0 dated 2014-12-24
Description: The kappa statistic implemented by Fleiss is a very popular index for assessing the reliability of agreement between two raters or among multiple observers. It is used both in the psychological and in the psychiatric field. Other fields of application are typically medicine, biology and engineering. Unfortunately,the kappa statistic may behave inconsistently in case of strong agreement between raters, since this index assumes lower values than it would have been expected. We propose a modification kappa implemented by Fleiss in case of nominal and ordinal variables. Monte Carlo simulations are used both to testing statistical hypotheses and to calculating percentile bootstrap confidence intervals based on proposed statistic in case of nominal and ordinal data.
Author: Daniele Giardiello [cre],
Piero Quatto [aut],
Enrico Ripamonti [aut],
Stefano Vigliani [ctb]
Maintainer: Daniele Giardiello
DESCRIPTION | 25 +-
MD5 | 18 +
R/concordance.R | 454 +++++++++++++++++++-------------------------------
R/wlin.conc.R |only
R/wquad.conc.R |only
data/diagnostic.rda |binary
data/uterine.rda |only
data/winetable.rda |only
man/concordance.Rd | 29 +--
man/raters-package.Rd | 36 ++-
man/uterine.Rd |only
man/winetable.Rd |only
man/wlin.conc.Rd |only
man/wquad.conc.Rd |only
14 files changed, 249 insertions(+), 313 deletions(-)
Title: Latent Position and Cluster Models for Statistical Networks
Diff between latentnet versions 2.5.1 dated 2014-03-19 and 2.6.0 dated 2014-12-24
Description: A package to fit and simulate latent position and cluster models for statistical networks.
Author: Pavel N. Krivitsky [aut, cre],
Mark S. Handcock [aut],
Susan M. Shortreed [ctb],
Jeremy Tantrum [ctb],
Peter D. Hoff [ctb],
Li Wang [ctb],
Kirk Li [ctb]
Maintainer: Pavel N. Krivitsky
latentnet-2.5.1/latentnet/R/robust.inverse.R |only
latentnet-2.6.0/latentnet/ChangeLog | 20 +
latentnet-2.6.0/latentnet/DESCRIPTION | 23 +
latentnet-2.6.0/latentnet/LICENSE | 4
latentnet-2.6.0/latentnet/MD5 | 191 +++++++---------
latentnet-2.6.0/latentnet/R/InitErgmm.fixed.R | 18 +
latentnet-2.6.0/latentnet/R/InitErgmm.latent.R | 9
latentnet-2.6.0/latentnet/R/InitErgmm.random.R | 9
latentnet-2.6.0/latentnet/R/P.alloc.R | 9
latentnet-2.6.0/latentnet/R/bayesmbc.MCMC.C.R | 9
latentnet-2.6.0/latentnet/R/bayesmbc.R | 11
latentnet-2.6.0/latentnet/R/ergmm.MCMC.C.R | 58 +++-
latentnet-2.6.0/latentnet/R/ergmm.R | 11
latentnet-2.6.0/latentnet/R/ergmm.defaults.R | 9
latentnet-2.6.0/latentnet/R/ergmm.families.R | 92 ++++---
latentnet-2.6.0/latentnet/R/ergmm.geodesicmatrix.R | 9
latentnet-2.6.0/latentnet/R/ergmm.get.model.R | 19 +
latentnet-2.6.0/latentnet/R/ergmm.initvals.R | 21 +
latentnet-2.6.0/latentnet/R/ergmm.latent.effects.R | 9
latentnet-2.6.0/latentnet/R/ergmm.midarrow.R | 9
latentnet-2.6.0/latentnet/R/ergmm.par.R | 14 +
latentnet-2.6.0/latentnet/R/ergmm.permutation.R | 9
latentnet-2.6.0/latentnet/R/ergmm.probs.R | 76 ++++--
latentnet-2.6.0/latentnet/R/ergmm.statseval.R | 9
latentnet-2.6.0/latentnet/R/ergmm.tuner.R | 19 +
latentnet-2.6.0/latentnet/R/gof.ergmm.R | 18 -
latentnet-2.6.0/latentnet/R/label.switching.R | 17 +
latentnet-2.6.0/latentnet/R/latent.R | 9
latentnet-2.6.0/latentnet/R/mcmc.diagnostics.ergmm.R | 25 +-
latentnet-2.6.0/latentnet/R/merge.ergmm.R | 9
latentnet-2.6.0/latentnet/R/plot.ergmm.R | 31 +-
latentnet-2.6.0/latentnet/R/predict.ergmm.R | 12 -
latentnet-2.6.0/latentnet/R/print.ergmm.R | 9
latentnet-2.6.0/latentnet/R/print.ergmm.model.R | 10
latentnet-2.6.0/latentnet/R/procrustes.R | 9
latentnet-2.6.0/latentnet/R/simulate.ergmm.R | 13 +
latentnet-2.6.0/latentnet/R/summary.ergmm.R | 27 ++
latentnet-2.6.0/latentnet/R/utilities.R | 9
latentnet-2.6.0/latentnet/R/zzz.R | 33 +-
latentnet-2.6.0/latentnet/data/davis.RData |binary
latentnet-2.6.0/latentnet/data/sampson.RData |binary
latentnet-2.6.0/latentnet/man/as.mcmc.list.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/davis.Rd | 9
latentnet-2.6.0/latentnet/man/ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/ergmm.control.Rd | 9
latentnet-2.6.0/latentnet/man/ergmm.object.Rd | 9
latentnet-2.6.0/latentnet/man/ergmm.par.list.object.Rd | 9
latentnet-2.6.0/latentnet/man/ergmm.prior.Rd | 9
latentnet-2.6.0/latentnet/man/families.ergmm.Rd | 18 +
latentnet-2.6.0/latentnet/man/gof.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/latentnet-internal.Rd | 11
latentnet-2.6.0/latentnet/man/latentnet.Rd | 9
latentnet-2.6.0/latentnet/man/mcmc.diagnostics.ergmm.Rd | 14 -
latentnet-2.6.0/latentnet/man/merge.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/plot.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/predict.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/sampson.Rd | 41 +++
latentnet-2.6.0/latentnet/man/simulate.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/summary.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/terms.ergmm.Rd | 9
latentnet-2.6.0/latentnet/man/tribes.Rd | 9
latentnet-2.6.0/latentnet/src/P_alloc.c | 9
latentnet-2.6.0/latentnet/src/P_alloc.h | 9
latentnet-2.6.0/latentnet/src/ergmm_families.c | 15 +
latentnet-2.6.0/latentnet/src/ergmm_families.h | 9
latentnet-2.6.0/latentnet/src/ergmm_latent_effects.c | 9
latentnet-2.6.0/latentnet/src/ergmm_latent_effects.h | 9
latentnet-2.6.0/latentnet/src/ergmm_probs.c | 29 ++
latentnet-2.6.0/latentnet/src/ergmm_probs.h | 12 +
latentnet-2.6.0/latentnet/src/ergmm_sampler.c | 68 ++++-
latentnet-2.6.0/latentnet/src/ergmm_sampler.h | 19 +
latentnet-2.6.0/latentnet/src/ergmm_structs.h | 22 +
latentnet-2.6.0/latentnet/src/ergmm_updaters.c | 36 ++-
latentnet-2.6.0/latentnet/src/ergmm_updaters.h | 11
latentnet-2.6.0/latentnet/src/ergmm_utils.c | 10
latentnet-2.6.0/latentnet/src/ergmm_utils.h | 9
latentnet-2.6.0/latentnet/src/kl_switch.c | 9
latentnet-2.6.0/latentnet/src/kl_switch.h | 9
latentnet-2.6.0/latentnet/src/matrix_utils.c | 9
latentnet-2.6.0/latentnet/src/matrix_utils.h | 9
latentnet-2.6.0/latentnet/src/mbc_sampler.c | 16 +
latentnet-2.6.0/latentnet/src/mbc_sampler.h | 9
latentnet-2.6.0/latentnet/src/mvnorm.c | 9
latentnet-2.6.0/latentnet/src/mvnorm.h | 9
latentnet-2.6.0/latentnet/src/post_predict.c | 27 +-
latentnet-2.6.0/latentnet/src/post_predict.h | 10
latentnet-2.6.0/latentnet/src/procrustes.c | 9
latentnet-2.6.0/latentnet/src/procrustes.h | 9
latentnet-2.6.0/latentnet/src/wishart.c | 9
latentnet-2.6.0/latentnet/src/wishart.h | 9
latentnet-2.6.0/latentnet/tests/examples.R | 9
latentnet-2.6.0/latentnet/tests/missing.R | 9
latentnet-2.6.0/latentnet/tests/nolatent.R | 20 +
latentnet-2.6.0/latentnet/tests/nomcmc.R | 9
latentnet-2.6.0/latentnet/tests/nomixing.R | 9
latentnet-2.6.0/latentnet/tests/normal.R | 27 +-
latentnet-2.6.0/latentnet/tests/onlymcmc.R | 12 -
97 files changed, 1352 insertions(+), 297 deletions(-)
Title: Historical Boundaries of the United States of America, 1629-2000
Diff between USAboundaries versions 0.1 dated 2014-11-25 and 0.1.1 dated 2014-12-24
Description: This package provides spatial objects with the boundaries of
states or counties in the United States of America from 1629 to 2000.
It provides data from the Atlas of Historical County Boundaries.
Author: Lincoln Mullen [aut, cre],
Dr. William M. Scholl Center for American History and Culture, The
Newberry Library [cph]
Maintainer: Lincoln Mullen
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
NAMESPACE | 2 +-
README.md | 2 +-
man/USAboundaries.Rd | 3 ++-
man/hist_us_counties.Rd | 3 ++-
man/hist_us_states.Rd | 3 ++-
man/us_boundaries.Rd | 3 ++-
8 files changed, 21 insertions(+), 17 deletions(-)
Title: Programming with Big Data -- Scalable Linear Algebra Packages
Diff between pbdSLAP versions 0.1-9 dated 2014-05-31 and 0.2-0 dated 2014-12-24
Description: pbdSLAP utilizes scalable linear algebra packages mainly
including BLACS, PBLAS, and ScaLAPACK in double precision via
pbdMPI based on ScaLAPACK version 2.0.2.
Author: Wei-Chen Chen [aut, cre],
Drew Schmidt [aut],
George Ostrouchov [aut],
Pragneshkumar Patel [aut],
Brian Ripley [ctb] (Solaris & Mac)
Maintainer: Wei-Chen Chen
pbdSLAP-0.1-9/pbdSLAP/vignettes/pbdSLAP-include/jss.bst |only
pbdSLAP-0.1-9/pbdSLAP/vignettes/pbdSLAP-include/jss.cls |only
pbdSLAP-0.2-0/pbdSLAP/ChangeLog | 12 ++++
pbdSLAP-0.2-0/pbdSLAP/DESCRIPTION | 12 ++--
pbdSLAP-0.2-0/pbdSLAP/MD5 | 26 +++++-----
pbdSLAP-0.2-0/pbdSLAP/R/000_globalVariables.r |only
pbdSLAP-0.2-0/pbdSLAP/R/slap_blacs.r | 1
pbdSLAP-0.2-0/pbdSLAP/inst/doc/pbdSLAP-guide.Rnw | 11 ++--
pbdSLAP-0.2-0/pbdSLAP/inst/doc/pbdSLAP-guide.pdf |binary
pbdSLAP-0.2-0/pbdSLAP/inst/test_intface/00_make.sh | 3 -
pbdSLAP-0.2-0/pbdSLAP/inst/test_intface/00_make.win | 3 -
pbdSLAP-0.2-0/pbdSLAP/vignettes/build_pdf.sh | 11 +++-
pbdSLAP-0.2-0/pbdSLAP/vignettes/pbdSLAP-guide.Rnw | 11 ++--
pbdSLAP-0.2-0/pbdSLAP/vignettes/pbdSLAP-include/01-acknowledgement.tex | 10 +++
pbdSLAP-0.2-0/pbdSLAP/vignettes/pbdSLAP-include/01-introduction.tex | 11 +++-
pbdSLAP-0.2-0/pbdSLAP/vignettes/pbdSLAP-include/my_jss.cls |only
16 files changed, 75 insertions(+), 36 deletions(-)
Title: Generate Functions to Get or Set Global Options
Diff between GlobalOptions versions 0.0.4 dated 2014-12-01 and 0.0.5 dated 2014-12-24
Description: It provides more controls on the option values such as validation
and filtering on the values, making options invisible or private.
Author: Zuguang Gu
Maintainer: Zuguang Gu
DESCRIPTION | 11 ++++++-----
MD5 | 10 +++++-----
NEWS | 5 +++++
R/setGlobalOptions.R | 2 +-
build/vignette.rds |binary
inst/doc/GlobalOptions.pdf |binary
6 files changed, 17 insertions(+), 11 deletions(-)
Title: Classification, Regression and Feature Evaluation
Diff between CORElearn versions 0.9.43 dated 2014-05-12 and 0.9.44 dated 2014-12-24
Description: CORElearn is machine learning suite ported to R from standalone C++ package.
It contains several model learning techniques in classification and regression,
for example classification and regression trees with optional constructive induction and models in the leafs,
random forests, kNN, naive Bayes, and locally weighted regression.
It is especially strong in feature evaluation where it contains several variants of Relief
algorithm and many impurity based attribute evaluation functions, e.g., Gini, information gain, MDL, DKM...
Its additional strength is OrdEval algorithm and its visualization used for evaluation of data sets with ordinal features and class.
Several algorithms support parallel multithreaded execution via OpenMP.
The top level documentation is reachable through ?CORElearn.
Author: Marko Robnik-Sikonja and Petr Savicky with contributions from John Adeyanju Alao
Maintainer: "Marko Robnik-Sikonja"
ChangeLog | 1
DESCRIPTION | 18 +++++--------
MD5 | 64 +++++++++++++++++++++++------------------------
NAMESPACE | 46 +++++----------------------------
R/init.R | 4 +-
R/testCore.R | 6 ++--
man/CORElearn-package.Rd | 5 ++-
man/CoreModel.Rd | 6 ++--
man/calibrate.Rd | 2 -
man/classDataGen.Rd | 3 +-
man/classPrototypes.Rd | 2 -
man/destroyModels.Rd | 3 +-
man/getCoreModel.Rd | 3 +-
man/getRFsizes.Rd | 3 +-
man/modelEval.Rd | 3 +-
man/paramCoreIO.Rd | 3 +-
man/plot.CoreModel.Rd | 2 -
man/rfAttrEval.Rd | 3 +-
man/rfClustering.Rd | 2 -
man/rfOOB.Rd | 3 +-
man/rfOutliers.Rd | 2 -
man/rfProximity.Rd | 2 -
man/saveRF.Rd | 3 +-
src/Rfront.cpp | 10 +++----
src/constrct.h | 5 ++-
src/dataStore.cpp | 3 +-
src/expr.h | 4 +-
src/frontend.cpp | 2 -
src/general.h | 2 -
src/menu.cpp | 3 +-
src/options.cpp | 9 +++---
src/rndforest.cpp | 4 +-
src/rndforest.h | 1
33 files changed, 109 insertions(+), 123 deletions(-)
Title: Bayesian Feature Allocation Model for Tumor Heterogeneity
Diff between BayClone2 versions 1.0 dated 2014-12-22 and 1.1 dated 2014-12-24
Description: A Bayesian feature allocation model is implemented for inference on tumor heterogeneity using next-generation sequencing data. The model identifies the subclonal copy number and single nucleotide mutations at a selected set of loci and provides inference on genetic tumor variation.
Author: Juhee Lee, Peter Mueller, Subhajit Sengupta, Kamalakar Gulukota, Yuan Ji
Maintainer: Subhajit Sengupta
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
R/fn_BayClone2.R | 1 -
src/BayClone2.cpp | 12 +++++++-----
4 files changed, 14 insertions(+), 13 deletions(-)
Title: Hybrid simulation and genome scan for dominant markers
Diff between AFLPsim versions 0.3-3 dated 2014-04-16 and 0.3-4 dated 2014-12-24
Description: This package is developed in the Plant Reproductive Biology Lab (RNM-214) - University of Seville. It contains hybrid simulation functions for dominant genetic data. It also provides several genome scan methods.
Author: Francisco Balao [aut, cre],
Juan Luis García-Castaño [aut]
Maintainer: Francisco Balao
DESCRIPTION | 8 ++++----
MD5 | 18 +++++++++---------
README.md | 4 ++--
inst/CITATION | 26 ++++++++++----------------
inst/NEWS.Rd | 7 ++++++-
man/AFLPsim-package.Rd | 6 +++---
man/gscan.Rd | 4 +++-
man/hybridize.Rd | 4 ++++
man/hybridsim.Rd | 4 ++++
man/sim2newhybrids.Rd | 2 +-
10 files changed, 46 insertions(+), 37 deletions(-)