Title: Multiple Hypothesis Testing
Diff between sgof versions 2.1.1 dated 2014-10-23 and 2.2 dated 2015-02-11
Description: seven different methods for multiple testing problems. The SGoF-type methods and the BH and BY false discovery rate controlling procedures.
Author: Irene Castro Conde and Jacobo de Una Alvarez
Maintainer: Irene Castro Conde
DESCRIPTION | 17 +++++++++--------
MD5 | 41 ++++++++++++++++++++++-------------------
NAMESPACE | 2 ++
R/BBSGoF.R | 9 +++++++--
R/BH.R | 2 +-
R/BY.R | 2 +-
R/Bayesian.SGoF.R | 2 +-
R/Binomial.SGoF.R | 2 +-
R/Discrete.SGoF.R |only
R/SGoF.R | 2 +-
R/print.Discrete.SGoF.R |only
man/BBSGoF.Rd | 9 +++++----
man/BH.Rd | 2 +-
man/BY.Rd | 4 ++--
man/Bayesian.SGoF.Rd | 2 +-
man/Binomial.SGoF.Rd | 6 +++---
man/Discrete.SGoF.Rd |only
man/SGoF.Rd | 6 +++---
man/plot.Binomial.SGoF.Rd | 2 +-
man/plot.SGoF.Rd | 3 ++-
man/sgof-package.Rd | 37 +++++++++++++++++++++++++++++--------
man/summary.Binomial.SGoF.Rd | 2 +-
man/summary.SGoF.Rd | 2 +-
23 files changed, 94 insertions(+), 60 deletions(-)
Title: Efficient Score Statistics For Genome-Wide SNP Set Analysis
Diff between RSNPset versions 0.3 dated 2014-12-16 and 0.4 dated 2015-02-11
Description: RSNPset is an implementation of the use of efficient score statistics
in genome-wide SNP set analysis with complex traits. The package provides three standard
score statistics (Cox, binomial, and Gaussian) but is easily extensible to include
others. Code implementing the inferential procedure is primarily written in C++ and
utilizes parallelization of the analysis to reduce runtime. A supporting function offers
simple computation of observed, permutation, and FWER and FDR adjusted p-values.
Author: Chanhee Yi, Alexander Sibley, and Kouros Owzar
Maintainer: Alexander Sibley
DESCRIPTION | 10 +-
MD5 | 31 +++----
NEWS |only
R/rsnpset.R | 184 ++++++++++++++++++++++++------------------
R/rsnpset.pvalue.R | 2
R/summary.RSNPset.R | 4
R/summary.RSNPset.pvalue.R | 4
inst/doc/rsnpset.R | 15 ++-
inst/doc/rsnpset.Rnw | 161 ++++++++++++++++++++++++++----------
inst/doc/rsnpset.pdf |binary
man/RSNPset-package.Rd | 16 +--
man/rsnpset.Rd | 44 +++++-----
man/rsnpset.pvalue.Rd | 30 +++---
man/summary.RSNPset.Rd | 33 +++----
man/summary.RSNPset.pvalue.Rd | 22 ++---
src/rsnpset.cpp | 60 ++++++++++---
vignettes/rsnpset.Rnw | 161 ++++++++++++++++++++++++++----------
17 files changed, 502 insertions(+), 275 deletions(-)
Title: Selection of K in K-Means Clustering
Diff between kselection versions 0.1.1 dated 2014-10-17 and 0.2.0 dated 2015-02-11
Description: Selection of k in k-means clustering based on Pham et al. paper
``Selection of k in k-means clustering''.
Author: Daniel Rodriguez
Maintainer: Daniel Rodriguez
kselection-0.1.1/kselection/inst |only
kselection-0.2.0/kselection/DESCRIPTION | 18 -
kselection-0.2.0/kselection/MD5 | 30 +--
kselection-0.2.0/kselection/NAMESPACE | 2
kselection-0.2.0/kselection/NEWS | 9
kselection-0.2.0/kselection/R/kselection.R | 6
kselection-0.2.0/kselection/R/pham.R | 173 +++++++++++-------
kselection-0.2.0/kselection/man/get_f_k.Rd | 5
kselection-0.2.0/kselection/man/get_k_threshold.Rd | 5
kselection-0.2.0/kselection/man/kselection-package.Rd | 9
kselection-0.2.0/kselection/man/kselection.Rd | 34 ++-
kselection-0.2.0/kselection/man/num_clusters.Rd | 5
kselection-0.2.0/kselection/man/num_clusters_all.Rd | 5
kselection-0.2.0/kselection/man/set_k_threshold.Rd | 5
kselection-0.2.0/kselection/tests |only
15 files changed, 190 insertions(+), 116 deletions(-)
Title: Bootstrap 2 Web Components for Use with Shiny
Diff between shinybootstrap2 versions 0.2 dated 2015-01-22 and 0.2.1 dated 2015-02-11
More information about shinybootstrap2 at CRAN
Description: Provides Bootstrap 2 web components for use with the Shiny
package. With versions of Shiny prior to 0.11, these Bootstrap 2 components
were included as part of the package. Later versions of Shiny include
Bootstrap 3, so the Bootstrap 2 components have been moved into this
package for those uses who rely on features specific to Bootstrap 2.
Author: Winston Chang [aut, cre],
RStudio [cph],
Mark Otto [ctb] (Bootstrap library),
Jacob Thornton [ctb] (Bootstrap library),
Bootstrap contributors [ctb] (Bootstrap library; authors listed at
https://github.com/twbs/bootstrap/graphs/contributors),
Twitter, Inc [cph] (Bootstrap library),
Brian Reavis [ctb, cph] (selectize.js library),
Egor Khmelev [ctb, cph] (jslider library),
SpryMedia Limited [ctb, cph] (DataTables library)
Maintainer: Winston Chang
DESCRIPTION | 8 ++++----
MD5 | 7 ++++---
NEWS |only
R/output-datatable.R | 28 +++++++++++++++-------------
README.md | 2 +-
5 files changed, 24 insertions(+), 21 deletions(-)
Permanent link
Title: Phylogenetics for the Environmental Sciences
Diff between pez versions 0.9-0 dated 2014-11-07 and 1.0-0 dated 2015-02-11
Description: Eco-phylogenetic and community phylogenetic analyses.
Keeps community ecological and phylogenetic data matched up and
comparable using 'comparative.comm' objects. Wrappers for common
community phylogenetic indices ('shape', 'evenness', 'dispersion',
and 'dissimilarity' metrics). Implementation of Cavender-Bares
(2004) correlation of phylogenetic and ecological matrices
('fingerprint.regression'). Phylogenetic Generalised Linear Mixed
Models (PGLMMs) following ('pglmm') following Ives & Helmus (2011)
and Rafferty & Ives (2013). Simulation of null assemblages,
traits, and phylogenies ('scape', 'sim.meta.comm').
Author: William D. Pearse, Marc W. Cadotte, Jeannine Cavender-Bares,
Anthony R. Ives, Caroline Tucker, Steve C. Walker, Matthew R. Helmus
Maintainer: William D. Pearse
pez-0.9-0/pez/inst/tests/vert.txt |only
pez-1.0-0/pez/DESCRIPTION | 19 +-
pez-1.0-0/pez/MD5 | 40 ++---
pez-1.0-0/pez/NAMESPACE | 29 +++-
pez-1.0-0/pez/NEWS |only
pez-1.0-0/pez/R/comparative.comm.R | 101 +++++++++++++-
pez-1.0-0/pez/R/dispersion.R | 8 -
pez-1.0-0/pez/R/dissimilarity.R | 8 -
pez-1.0-0/pez/R/evenness.R | 8 -
pez-1.0-0/pez/R/pglmm.R |only
pez-1.0-0/pez/R/phy.signal.R | 6
pez-1.0-0/pez/R/plotting.R | 8 -
pez-1.0-0/pez/R/shape.R | 23 +--
pez-1.0-0/pez/R/utility.R | 10 +
pez-1.0-0/pez/inst/doc/pez-intro.R | 61 ++++++++
pez-1.0-0/pez/inst/doc/pez-intro.Rnw | 163 +++++++++++++++++++++--
pez-1.0-0/pez/inst/doc/pez-intro.pdf |binary
pez-1.0-0/pez/inst/tests/test_comparative.comm.R | 57 +++++---
pez-1.0-0/pez/inst/tests/test_shape.R | 4
pez-1.0-0/pez/man/cc.manip.Rd | 49 ++++++
pez-1.0-0/pez/man/pglmm.Rd |only
pez-1.0-0/pez/man/plot.comparative.comm.Rd | 5
pez-1.0-0/pez/vignettes/pez-intro.Rnw | 163 +++++++++++++++++++++--
23 files changed, 629 insertions(+), 133 deletions(-)
Title: Smoothing Splines for Large Samples
Diff between bigsplines versions 1.0-4 dated 2014-10-03 and 1.0-5 dated 2015-02-11
Description: Fits smoothing spline regression models using scalable algorithms designed for large samples. Five marginal spline types are supported: cubic, different cubic, cubic periodic, cubic thin-plate, and nominal. Parametric predictors are also supported. Response can be Gaussian or non-Gaussian: Binomial, Poisson, Gamma, Inverse Gaussian, or Negative Binomial.
Author: Nathaniel E. Helwig
Maintainer: Nathaniel E. Helwig
bigsplines-1.0-4/bigsplines/R/predict.css.R |only
bigsplines-1.0-4/bigsplines/R/predict.ssa.R |only
bigsplines-1.0-4/bigsplines/R/predict.ssg.R |only
bigsplines-1.0-4/bigsplines/R/predict.ssp.R |only
bigsplines-1.0-4/bigsplines/R/predict.tps.R |only
bigsplines-1.0-4/bigsplines/R/print.css.R |only
bigsplines-1.0-4/bigsplines/R/print.ssa.R |only
bigsplines-1.0-4/bigsplines/R/print.ssg.R |only
bigsplines-1.0-4/bigsplines/R/print.ssp.R |only
bigsplines-1.0-4/bigsplines/R/print.summary.css.R |only
bigsplines-1.0-4/bigsplines/R/print.summary.ssa.R |only
bigsplines-1.0-4/bigsplines/R/print.summary.ssg.R |only
bigsplines-1.0-4/bigsplines/R/print.summary.ssp.R |only
bigsplines-1.0-4/bigsplines/R/print.summary.tps.R |only
bigsplines-1.0-4/bigsplines/R/print.tps.R |only
bigsplines-1.0-4/bigsplines/R/summary.css.R |only
bigsplines-1.0-4/bigsplines/R/summary.ssa.R |only
bigsplines-1.0-4/bigsplines/R/summary.ssg.R |only
bigsplines-1.0-4/bigsplines/R/summary.ssp.R |only
bigsplines-1.0-4/bigsplines/R/summary.tps.R |only
bigsplines-1.0-4/bigsplines/man/predict.css.Rd |only
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bigsplines-1.0-4/bigsplines/man/predict.ssg.Rd |only
bigsplines-1.0-4/bigsplines/man/predict.ssp.Rd |only
bigsplines-1.0-4/bigsplines/man/predict.tps.Rd |only
bigsplines-1.0-5/bigsplines/ChangeLog | 32 ++++
bigsplines-1.0-5/bigsplines/DESCRIPTION | 8 -
bigsplines-1.0-5/bigsplines/MD5 | 117 ++++++++--------
bigsplines-1.0-5/bigsplines/NAMESPACE | 23 +++
bigsplines-1.0-5/bigsplines/R/bigspline.R | 4
bigsplines-1.0-5/bigsplines/R/bigssa.R | 10 -
bigsplines-1.0-5/bigsplines/R/bigssg.R | 9 -
bigsplines-1.0-5/bigsplines/R/bigssp.R | 10 -
bigsplines-1.0-5/bigsplines/R/bigtps.R | 4
bigsplines-1.0-5/bigsplines/R/gcvgss.R | 79 ++++++++--
bigsplines-1.0-5/bigsplines/R/gcvssg.R | 75 ++++++++--
bigsplines-1.0-5/bigsplines/R/imagebar.R | 1
bigsplines-1.0-5/bigsplines/R/lamcoefg.R | 77 ++++++++--
bigsplines-1.0-5/bigsplines/R/lamloopg.R | 75 ++++++++--
bigsplines-1.0-5/bigsplines/R/makeZtX.R |only
bigsplines-1.0-5/bigsplines/R/makeZtZ.R |only
bigsplines-1.0-5/bigsplines/R/makessa.R | 48 +++++-
bigsplines-1.0-5/bigsplines/R/makessg.R | 13 +
bigsplines-1.0-5/bigsplines/R/makessp.R | 49 +++++-
bigsplines-1.0-5/bigsplines/R/predict.bigspline.R |only
bigsplines-1.0-5/bigsplines/R/predict.bigssa.R |only
bigsplines-1.0-5/bigsplines/R/predict.bigssg.R |only
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bigsplines-1.0-5/bigsplines/R/predict.bigtps.R |only
bigsplines-1.0-5/bigsplines/R/print.bigspline.R |only
bigsplines-1.0-5/bigsplines/R/print.bigssa.R |only
bigsplines-1.0-5/bigsplines/R/print.bigssg.R |only
bigsplines-1.0-5/bigsplines/R/print.bigssp.R |only
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bigsplines-1.0-5/bigsplines/R/print.summary.bigspline.R |only
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bigsplines-1.0-5/bigsplines/R/print.summary.bigtps.R |only
bigsplines-1.0-5/bigsplines/R/remlri.R |only
bigsplines-1.0-5/bigsplines/R/remlvc.R |only
bigsplines-1.0-5/bigsplines/R/smartssg.R | 14 -
bigsplines-1.0-5/bigsplines/R/ssawork.R | 82 ++++++++++-
bigsplines-1.0-5/bigsplines/R/ssblup.R |only
bigsplines-1.0-5/bigsplines/R/ssgwork.R | 30 ++--
bigsplines-1.0-5/bigsplines/R/sspwork.R | 76 ++++++++++
bigsplines-1.0-5/bigsplines/R/summary.bigspline.R |only
bigsplines-1.0-5/bigsplines/R/summary.bigssa.R |only
bigsplines-1.0-5/bigsplines/R/summary.bigssg.R |only
bigsplines-1.0-5/bigsplines/R/summary.bigssp.R |only
bigsplines-1.0-5/bigsplines/R/summary.bigtps.R |only
bigsplines-1.0-5/bigsplines/man/bigspline.Rd | 4
bigsplines-1.0-5/bigsplines/man/bigsplines-internal.Rd | 5
bigsplines-1.0-5/bigsplines/man/bigssa.Rd | 25 +++
bigsplines-1.0-5/bigsplines/man/bigssg.Rd | 20 ++
bigsplines-1.0-5/bigsplines/man/bigssp.Rd | 25 +++
bigsplines-1.0-5/bigsplines/man/bigtps.Rd | 2
bigsplines-1.0-5/bigsplines/man/makessa.Rd | 14 +
bigsplines-1.0-5/bigsplines/man/makessg.Rd | 6
bigsplines-1.0-5/bigsplines/man/makessp.Rd | 14 +
bigsplines-1.0-5/bigsplines/man/predict.bigspline.Rd |only
bigsplines-1.0-5/bigsplines/man/predict.bigssa.Rd |only
bigsplines-1.0-5/bigsplines/man/predict.bigssg.Rd |only
bigsplines-1.0-5/bigsplines/man/predict.bigssp.Rd |only
bigsplines-1.0-5/bigsplines/man/predict.bigtps.Rd |only
bigsplines-1.0-5/bigsplines/man/print.Rd | 62 ++++----
bigsplines-1.0-5/bigsplines/man/summary.Rd | 39 ++---
87 files changed, 806 insertions(+), 246 deletions(-)
Title: Tree-Based Varying Coefficient Regression for Generalized Linear
and Ordinal Mixed Models
Diff between vcrpart versions 0.3-1 dated 2015-01-04 and 0.3-2 dated 2015-02-11
Description: Recursive partitioning for varying coefficient generalized linear models and ordinal linear mixed models. Special features are coefficient-wise partitioning, non-varying coefficients and partitioning of time-varying variables in longitudinal regression.
Author: Reto Buergin [aut, cre, cph],
Gilbert Ritschard [ctb, ths]
Maintainer: Reto Buergin
DESCRIPTION | 9 +-
MD5 | 50 +++++++-------
NEWS | 18 +++++
R/olmm-methods.R | 129 ++++++++++++++++++++++---------------
R/olmm.R | 10 +-
R/utils.R | 20 +++--
ToDo | 4 -
inst/CITATION | 15 ++--
man/PL.Rd | 2
man/fvcm-methods.Rd | 6 -
man/fvcm.Rd | 4 -
man/olmm-gefp.Rd | 5 -
man/olmm-methods.Rd | 6 -
man/olmm-predict.Rd | 118 ++++++++++++++++++++++++----------
man/olmm.Rd | 38 +++++++---
man/otsplot.Rd | 4 -
man/poverty.Rd | 2
man/schizo.Rd | 4 -
man/tvcglm.Rd | 11 +--
man/tvcm-cv.Rd | 9 +-
man/tvcm-plot.Rd | 4 -
man/tvcm.Rd | 7 +-
man/tvcolmm.Rd | 7 +-
src/init.c | 1
src/olmm.c | 180 +++++++++++++++++++++++++++++++++++++++++++++++++++-
src/olmm.h | 3
26 files changed, 478 insertions(+), 188 deletions(-)
Title: Functions for Kriging and Point Pattern Analysis
Diff between spatial versions 7.3-8 dated 2014-03-28 and 7.3-9 dated 2015-02-11
Description: Functions for kriging and point pattern analysis.
Author: Brian Ripley [aut, cre, cph],
Roger Bivand [ctb],
William Venables [cph]
Maintainer: Brian Ripley
DESCRIPTION | 10 +++++-----
MD5 | 8 +++++---
inst/po/en@quot/LC_MESSAGES/R-spatial.mo |binary
inst/po/ko |only
po/R-ko.po |only
po/R-spatial.pot | 4 ++--
6 files changed, 12 insertions(+), 10 deletions(-)
Title: Tools for Simulating and Plotting Quantities of Interest
Estimated From Cox Proportional Hazards Models
Diff between simPH versions 1.2.6.1 dated 2015-01-31 and 1.3 dated 2015-02-11
Description: Simulates and plots quantities of interest (relative
hazards, first differences, and hazard ratios) for linear coefficients,
multiplicative interactions, polynomials, penalised splines, and
non-proportional hazards, as well as stratified survival curves from Cox
Proportional Hazard models. It also simulates and plots marginal effects
for multiplicative interactions.
Author: Christopher Gandrud [aut, cre]
Maintainer: Christopher Gandrud
DESCRIPTION | 13 -
MD5 | 55 ++---
NAMESPACE | 2
NEWS | 24 ++
R/MinMaxLines.R | 4
R/SmoothSim.R | 42 ++--
R/coxsimInteract.R | 17 +
R/coxsimLinear.R | 238 +++++++++++------------
R/coxsimPoly.R | 194 +++++++++----------
R/coxsimSpline.R | 36 ++-
R/coxsimtvc.R | 299 ++++++++++++++---------------
R/simGG.siminteract.R | 418 +++++++++++++++++++++--------------------
R/simGG.simlinear.R | 288 +++++++++++++---------------
R/simGG.simpoly.R | 436 +++++++++++++++++++++----------------------
R/simGG.simspline.R | 316 +++++++++++++------------------
R/simGG.simtvc.R | 402 +++++++++++++++++----------------------
R/smallUtils.R | 51 +++++
README.md | 33 ++-
man/as.data.frame.coxsim.Rd |only
man/coxsimLinear.Rd | 12 -
man/coxsimPoly.Rd | 6
man/coxsimSpline.Rd | 9
man/coxsimtvc.Rd | 2
man/simGG.siminteract.Rd | 22 +-
man/simGG.simlinear.Rd | 21 +-
man/simGG.simpoly.Rd | 21 +-
man/simGG.simspline.Rd | 64 ++----
man/simGG.simtvc.Rd | 13 -
vignettes/simPH-overview.Rnw | 146 +++++++-------
29 files changed, 1630 insertions(+), 1554 deletions(-)
Title: A Tool to Associate FASTA Sequences and Features
Diff between SeqFeatR versions 0.1.5 dated 2014-06-10 and 0.1.7 dated 2015-02-11
Description: SeqFeatR provides user friendly methods for the identification of sequence patterns that are statistically significantly associated with a property of the sequence. For instance, SeqFeatR allows to identify viral immune escape mutations for hosts of given HLA types. The underlying statistical method is Fisher's exact test, with appropriate corrections for multiple testing. Patterns may be point mutations or n-tuple of mutations. SeqFeatR offers several ways to visualize the results of the statistical analyses.
Author: Bettina Budeus
Maintainer: Bettina Budeus
SeqFeatR-0.1.5/SeqFeatR/R/assocpointtuple.R |only
SeqFeatR-0.1.5/SeqFeatR/R/founderelim.R |only
SeqFeatR-0.1.5/SeqFeatR/R/hlaTree.R |only
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SeqFeatR-0.1.7/SeqFeatR/DESCRIPTION | 16
SeqFeatR-0.1.7/SeqFeatR/INSTALL |only
SeqFeatR-0.1.7/SeqFeatR/MD5 | 104
SeqFeatR-0.1.7/SeqFeatR/NAMESPACE | 16
SeqFeatR-0.1.7/SeqFeatR/NEWS |only
SeqFeatR-0.1.7/SeqFeatR/R/SeqFeatR_GUI.R | 4713 +++++-----
SeqFeatR-0.1.7/SeqFeatR/R/assocpair.R | 12
SeqFeatR-0.1.7/SeqFeatR/R/assocpairfeat.R | 12
SeqFeatR-0.1.7/SeqFeatR/R/assocpoint.R | 413
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SeqFeatR-0.1.7/SeqFeatR/R/assoctuple.R | 43
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SeqFeatR-0.1.7/SeqFeatR/R/getfreqs.R |only
SeqFeatR-0.1.7/SeqFeatR/R/orPlot.R | 105
SeqFeatR-0.1.7/SeqFeatR/R/q-values.R | 6
SeqFeatR-0.1.7/SeqFeatR/R/rewritetuple.R | 10
SeqFeatR-0.1.7/SeqFeatR/R/tartan.R | 8
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SeqFeatR-0.1.7/SeqFeatR/R/visualizepairfeat.R |only
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SeqFeatR-0.1.7/SeqFeatR/inst/extdata/Example_HLA_binding_motifs_aa.csv | 1
SeqFeatR-0.1.7/SeqFeatR/inst/extdata/Example_aa.fasta | 28
SeqFeatR-0.1.7/SeqFeatR/inst/extdata/Example_epitopes_aa.csv | 2
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SeqFeatR-0.1.7/SeqFeatR/inst/extdata/config.cfg | 13
SeqFeatR-0.1.7/SeqFeatR/man/SeqFeatR-package.Rd | 19
SeqFeatR-0.1.7/SeqFeatR/man/SeqFeatR_GUI.Rd | 6
SeqFeatR-0.1.7/SeqFeatR/man/assocpair.Rd | 68
SeqFeatR-0.1.7/SeqFeatR/man/assocpairfeat.Rd | 103
SeqFeatR-0.1.7/SeqFeatR/man/assocpoint.Rd | 209
SeqFeatR-0.1.7/SeqFeatR/man/assocpointpair.Rd |only
SeqFeatR-0.1.7/SeqFeatR/man/assoctuple.Rd | 159
SeqFeatR-0.1.7/SeqFeatR/man/comparewithancestral.Rd |only
SeqFeatR-0.1.7/SeqFeatR/man/foundereffectfinder.Rd |only
SeqFeatR-0.1.7/SeqFeatR/man/getfreqs.Rd |only
SeqFeatR-0.1.7/SeqFeatR/man/orPlot.Rd | 99
SeqFeatR-0.1.7/SeqFeatR/man/q-values.Rd | 29
SeqFeatR-0.1.7/SeqFeatR/man/rewritetuple.Rd | 53
SeqFeatR-0.1.7/SeqFeatR/man/tartan.Rd | 124
SeqFeatR-0.1.7/SeqFeatR/man/visualizepair.Rd |only
SeqFeatR-0.1.7/SeqFeatR/man/visualizepairfeat.Rd |only
SeqFeatR-0.1.7/SeqFeatR/man/volcanoplot.Rd |only
SeqFeatR-0.1.7/SeqFeatR/vignettes |only
73 files changed, 3602 insertions(+), 2769 deletions(-)
Title: Recursive Partitioning and Regression Trees
Diff between rpart versions 4.1-8 dated 2014-03-28 and 4.1-9 dated 2015-02-11
Description: Recursive partitioning for classification,
regression and survival trees. An implementation of most of the
functionality of the 1984 book by Breiman, Friedman, Olshen and Stone.
Author: Terry Therneau [aut],
Beth Atkinson [aut],
Brian Ripley [aut, trl, cre] (author of initial R port)
Maintainer: Brian Ripley
ChangeLog | 8 +
DESCRIPTION | 10 +-
MD5 | 28 ++---
R/rpart.R | 6 -
R/xpred.rpart.R | 2
inst/doc/longintro.pdf |binary
inst/doc/usercode.pdf |binary
inst/po/en@quot/LC_MESSAGES/R-rpart.mo |binary
inst/po/en@quot/LC_MESSAGES/rpart.mo |binary
inst/po/ko/LC_MESSAGES/R-rpart.mo |binary
inst/po/ko/LC_MESSAGES/rpart.mo |binary
po/R-ko.po | 159 +++++++++++++++------------------
po/R-rpart.pot | 4
po/ko.po | 47 ++++-----
po/rpart.pot | 4
15 files changed, 130 insertions(+), 138 deletions(-)
Title: Feed-Forward Neural Networks and Multinomial Log-Linear Models
Diff between nnet versions 7.3-8 dated 2014-03-28 and 7.3-9 dated 2015-02-11
Description: Software for feed-forward neural networks with a single
hidden layer, and for multinomial log-linear models.
Author: Brian Ripley [aut, cre, cph],
William Venables [cph]
Maintainer: Brian Ripley
DESCRIPTION | 12 ++---
MD5 | 14 +++---
inst/po/en@quot/LC_MESSAGES/R-nnet.mo |binary
inst/po/ko/LC_MESSAGES/R-nnet.mo |binary
man/multinom.Rd | 15 ------
man/which.is.max.Rd | 6 +-
po/R-ko.po | 73 ++++++++++++++++------------------
po/R-nnet.pot | 4 -
8 files changed, 55 insertions(+), 69 deletions(-)
Title: Functions for Kernel Smoothing Supporting Wand & Jones (1995)
Diff between KernSmooth versions 2.23-13 dated 2014-09-14 and 2.23-14 dated 2015-02-11
Description: Functions for kernel smoothing (and density estimation)
corresponding to the book:
Wand, M.P. and Jones, M.C. (1995) "Kernel Smoothing".
Author: Matt Wand [aut],
Brian Ripley [trl, cre, ctb] (R port and updates)
Maintainer: Brian Ripley
DESCRIPTION | 14 ++++++------
MD5 | 14 ++++++------
PORTING | 7 ++++++
R/all.R | 4 +--
inst/po/en@quot/LC_MESSAGES/R-KernSmooth.mo |binary
inst/po/ko/LC_MESSAGES/R-KernSmooth.mo |binary
po/R-KernSmooth.pot | 4 +--
po/R-ko.po | 31 +++++++++++++---------------
8 files changed, 40 insertions(+), 34 deletions(-)
Title: Tools for Easily Combining and Cleaning Data Sets
Diff between DataCombine versions 0.2.8.3 dated 2015-01-31 and 0.2.9 dated 2015-02-11
Description: Tools for combining and cleaning data sets, particularly
with grouped and time series data.
Author: Christopher Gandrud [aut, cre]
Maintainer: Christopher Gandrud
DESCRIPTION | 8 ++++----
MD5 | 12 ++++++------
NAMESPACE | 1 +
NEWS | 4 ++++
R/slide.R | 43 ++++++++++++++++++++++++-------------------
README.md | 2 +-
man/slideMA.Rd | 8 ++++----
7 files changed, 44 insertions(+), 34 deletions(-)
Title: Functions for Classification
Diff between class versions 7.3-11 dated 2014-07-21 and 7.3-12 dated 2015-02-11
Description: Various functions for classification.
Author: Brian Ripley [aut, cre, cph],
William Venables [cph]
Maintainer: Brian Ripley
DESCRIPTION | 10 +++---
MD5 | 10 +++---
inst/po/en@quot/LC_MESSAGES/R-class.mo |binary
inst/po/ko/LC_MESSAGES/R-class.mo |binary
po/R-class.pot | 4 +-
po/R-ko.po | 51 ++++++++++++++++-----------------
6 files changed, 37 insertions(+), 38 deletions(-)
Title: Bootstrap Functions (Originally by Angelo Canty for S)
Diff between boot versions 1.3-14 dated 2015-01-10 and 1.3-15 dated 2015-02-11
Description: Functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Applications" by A. C. Davison and
D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S.
Author: Angelo Canty [aut],
Brian Ripley [aut, trl, cre] (author of parallel support)
Maintainer: Brian Ripley
ChangeLog | 8 +
DESCRIPTION | 16 +--
MD5 | 14 +-
R/bootfuns.q | 5
inst/po/en@quot/LC_MESSAGES/R-boot.mo |binary
inst/po/ko/LC_MESSAGES/R-boot.mo |binary
po/R-boot.pot | 4
po/R-ko.po | 176 ++++++++++++++++------------------
8 files changed, 114 insertions(+), 109 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-09-29 1.0-18
More information about MazamaSpatialUtils at CRAN
Permanent link
Title: Grammatical Evolution for R
Diff between gramEvol versions 1.2-1 dated 2014-10-22 and 2.0-2 dated 2015-02-11
Description: Context Free Grammar and Grammatical Evolution for R.
Author: Farzad Noorian, Anthony Mihirana de Silva
Maintainer: Farzad Noorian
gramEvol-1.2-1/gramEvol/NEWS |only
gramEvol-1.2-1/gramEvol/R/ApplyGrammarRule.R |only
gramEvol-1.2-1/gramEvol/R/ChosenGrammarRule.R |only
gramEvol-1.2-1/gramEvol/R/GetFirstNonTerminalandRest.R |only
gramEvol-1.2-1/gramEvol/R/GetGrammarDepth.R |only
gramEvol-1.2-1/gramEvol/R/GetGrammarMaxRuleSize.R |only
gramEvol-1.2-1/gramEvol/R/GetGrammarMaxSequenceLen.R |only
gramEvol-1.2-1/gramEvol/R/GetGrammarNumOfExpressions.R |only
gramEvol-1.2-1/gramEvol/R/GetGrammarRuleIndex.R |only
gramEvol-1.2-1/gramEvol/R/GetPossibleRuleChoices.R |only
gramEvol-1.2-1/gramEvol/R/GrammarGenotypeToPhenotype.R |only
gramEvol-1.2-1/gramEvol/R/IsGrammarTerminal.R |only
gramEvol-1.2-1/gramEvol/R/TraverseCodon.R |only
gramEvol-1.2-1/gramEvol/man/GrammarGenotypeToPhenotype.Rd |only
gramEvol-1.2-1/gramEvol/tests/grammar.R |only
gramEvol-2.0-2/gramEvol/ChangeLog | 14
gramEvol-2.0-2/gramEvol/DESCRIPTION | 14
gramEvol-2.0-2/gramEvol/MD5 | 95 +-
gramEvol-2.0-2/gramEvol/NAMESPACE | 47 +
gramEvol-2.0-2/gramEvol/R/CreateGrammar.R | 59 +
gramEvol-2.0-2/gramEvol/R/EvalExpressions.R | 59 -
gramEvol-2.0-2/gramEvol/R/EvolutionStrategy.int.R |only
gramEvol-2.0-2/gramEvol/R/GEPhenotype.R |only
gramEvol-2.0-2/gramEvol/R/GERule.R |only
gramEvol-2.0-2/gramEvol/R/GERule_Concat.R |only
gramEvol-2.0-2/gramEvol/R/GeneticAlg.int.R | 487 ++++++-------
gramEvol-2.0-2/gramEvol/R/GeneticAlg_helpers.R |only
gramEvol-2.0-2/gramEvol/R/GrammarGetDepth.R |only
gramEvol-2.0-2/gramEvol/R/GrammarGetFirstSequence.R |only
gramEvol-2.0-2/gramEvol/R/GrammarGetNextSequence.R |only
gramEvol-2.0-2/gramEvol/R/GrammarIsRecursive.R |only
gramEvol-2.0-2/gramEvol/R/GrammarIsTerminal.R |only
gramEvol-2.0-2/gramEvol/R/GrammarMap.R |only
gramEvol-2.0-2/gramEvol/R/GrammarMaxRuleSize.R |only
gramEvol-2.0-2/gramEvol/R/GrammarMaxSequenceLen.R |only
gramEvol-2.0-2/gramEvol/R/GrammarMaxSequenceRange.R |only
gramEvol-2.0-2/gramEvol/R/GrammarNumOfExpressions.R |only
gramEvol-2.0-2/gramEvol/R/GrammarOverflow.R |only
gramEvol-2.0-2/gramEvol/R/GrammarRandomExpression.R |only
gramEvol-2.0-2/gramEvol/R/GrammarStartSymbol.R |only
gramEvol-2.0-2/gramEvol/R/GrammarVerboseMap.R |only
gramEvol-2.0-2/gramEvol/R/Grammar_escape.R |only
gramEvol-2.0-2/gramEvol/R/Grammar_helpers.R |only
gramEvol-2.0-2/gramEvol/R/GrammaticalEvolution.R | 146 ++-
gramEvol-2.0-2/gramEvol/R/GrammaticalExhaustiveSearch.R |only
gramEvol-2.0-2/gramEvol/R/GrammaticalRandomSearch.R |only
gramEvol-2.0-2/gramEvol/R/ReadBNFFile.R | 15
gramEvol-2.0-2/gramEvol/R/SymbolicRuleToListRule.R |only
gramEvol-2.0-2/gramEvol/R/print.GESearch.R |only
gramEvol-2.0-2/gramEvol/R/print.grammar.R | 29
gramEvol-2.0-2/gramEvol/R/summary.grammar.R |only
gramEvol-2.0-2/gramEvol/README.md | 6
gramEvol-2.0-2/gramEvol/build |only
gramEvol-2.0-2/gramEvol/inst |only
gramEvol-2.0-2/gramEvol/man/CreateGrammar.Rd | 110 +-
gramEvol-2.0-2/gramEvol/man/EvalExpressions.Rd | 24
gramEvol-2.0-2/gramEvol/man/EvolutionStrategy.int.Rd |only
gramEvol-2.0-2/gramEvol/man/GeneticAlg.int.Rd | 111 +-
gramEvol-2.0-2/gramEvol/man/GrammarGetNextSequence.Rd |only
gramEvol-2.0-2/gramEvol/man/GrammarIsTerminal.Rd |only
gramEvol-2.0-2/gramEvol/man/GrammarMap.Rd |only
gramEvol-2.0-2/gramEvol/man/GrammarRandomExpression.Rd |only
gramEvol-2.0-2/gramEvol/man/GrammaticalEvolution.Rd | 146 ++-
gramEvol-2.0-2/gramEvol/man/GrammaticalExhaustiveSearch.Rd |only
gramEvol-2.0-2/gramEvol/man/GrammaticalRandomSearch.Rd |only
gramEvol-2.0-2/gramEvol/man/summary.grammar.Rd |only
gramEvol-2.0-2/gramEvol/tests/bnf.R | 8
gramEvol-2.0-2/gramEvol/tests/es.R |only
gramEvol-2.0-2/gramEvol/tests/exhaustive.R |only
gramEvol-2.0-2/gramEvol/tests/ga.R | 6
gramEvol-2.0-2/gramEvol/tests/ge.R | 16
gramEvol-2.0-2/gramEvol/tests/grammar_newstyle.R |only
gramEvol-2.0-2/gramEvol/tests/grammar_oldstyle.R |only
gramEvol-2.0-2/gramEvol/tests/grammar_sequence.R |only
gramEvol-2.0-2/gramEvol/tests/randomsearch.R |only
gramEvol-2.0-2/gramEvol/vignettes |only
76 files changed, 818 insertions(+), 574 deletions(-)
Title: Tools for Simulating Direct Behavioral Observation Recording
Procedures Based on Alternating Renewal Processes
Diff between ARPobservation versions 1.0 dated 2014-05-29 and 1.1 dated 2015-02-11
More information about ARPobservation at CRAN
Description: Tools for simulating data generated by direct observation
recording. Behavior streams are simulated based on an alternating renewal
process, given specified distributions of event durations and interim
times. Different procedures for recording data can then be applied to the
simulated behavior streams. Functions are provided for the following
recording methods: continuous duration recording, event counting, momentary
time sampling, partial interval recording, and whole interval recording.
Author: James E. Pustejovsky, with contributions from Daniel M. Swan
Maintainer: James E. Pustejovsky
ARPobservation-1.0/ARPobservation/vignettes/Observation-algorithms-concordance.tex |only
ARPobservation-1.0/ARPobservation/vignettes/Observation-algorithms.tex |only
ARPobservation-1.1/ARPobservation/DESCRIPTION | 29
ARPobservation-1.1/ARPobservation/MD5 | 69 +-
ARPobservation-1.1/ARPobservation/NAMESPACE | 13
ARPobservation-1.1/ARPobservation/NEWS | 7
ARPobservation-1.1/ARPobservation/R/ARPobservation-package.r | 8
ARPobservation-1.1/ARPobservation/R/PIRapp.R |only
ARPobservation-1.1/ARPobservation/R/effect_size_estimators.R |only
ARPobservation-1.1/ARPobservation/R/simulate_behavior_stream.R | 308 ++++++++++
ARPobservation-1.1/ARPobservation/README.md | 3
ARPobservation-1.1/ARPobservation/build/vignette.rds |binary
ARPobservation-1.1/ARPobservation/data |only
ARPobservation-1.1/ARPobservation/demo/00Index | 1
ARPobservation-1.1/ARPobservation/demo/study_planning.R |only
ARPobservation-1.1/ARPobservation/inst/mc_est_test.R |only
ARPobservation-1.1/ARPobservation/man/ARPobservation.Rd | 9
ARPobservation-1.1/ARPobservation/man/Dunlap.Rd |only
ARPobservation-1.1/ARPobservation/man/F_const.Rd | 3
ARPobservation-1.1/ARPobservation/man/F_exp.Rd | 3
ARPobservation-1.1/ARPobservation/man/F_gam.Rd | 3
ARPobservation-1.1/ARPobservation/man/F_gam_mix.Rd | 3
ARPobservation-1.1/ARPobservation/man/F_unif.Rd | 3
ARPobservation-1.1/ARPobservation/man/F_weib.Rd | 3
ARPobservation-1.1/ARPobservation/man/Moes.Rd |only
ARPobservation-1.1/ARPobservation/man/PIR_MOM.Rd |only
ARPobservation-1.1/ARPobservation/man/PIR_loglik.Rd |only
ARPobservation-1.1/ARPobservation/man/augmented_recording.Rd | 3
ARPobservation-1.1/ARPobservation/man/continuous_duration_recording.Rd | 3
ARPobservation-1.1/ARPobservation/man/eq_dist.Rd | 3
ARPobservation-1.1/ARPobservation/man/event_counting.Rd | 3
ARPobservation-1.1/ARPobservation/man/incidence_bounds.Rd |only
ARPobservation-1.1/ARPobservation/man/interim_bounds.Rd |only
ARPobservation-1.1/ARPobservation/man/interval_recording.Rd | 3
ARPobservation-1.1/ARPobservation/man/logRespRatio.Rd |only
ARPobservation-1.1/ARPobservation/man/momentary_time_recording.Rd | 3
ARPobservation-1.1/ARPobservation/man/prevalence_bounds.Rd |only
ARPobservation-1.1/ARPobservation/man/r_MTS.Rd |only
ARPobservation-1.1/ARPobservation/man/r_PIR.Rd |only
ARPobservation-1.1/ARPobservation/man/r_WIR.Rd |only
ARPobservation-1.1/ARPobservation/man/r_behavior_stream.Rd | 3
ARPobservation-1.1/ARPobservation/man/r_continuous_recording.Rd |only
ARPobservation-1.1/ARPobservation/man/r_event_counting.Rd |only
ARPobservation-1.1/ARPobservation/man/reported_observations.Rd | 3
ARPobservation-1.1/ARPobservation/tests |only
45 files changed, 431 insertions(+), 58 deletions(-)
Permanent link