Title: Spatial Forecast Verification
Diff between SpatialVx versions 0.1-0 dated 2011-11-19 and 0.1-1 dated 2012-03-13
Description: Functions to perform most of the spatial forecast
verification methods carried out in the Spatial Forecast
Verification Inter-Comparison Project (ICP), and a few others.
This first version only has the neighborhood methods, but the
next version will have many more.
Author: Eric Gilleland
Maintainer: Eric Gilleland
SpatialVx-0.1-0/SpatialVx/man/kernel2d.Rd |only
SpatialVx-0.1-1/SpatialVx/DESCRIPTION | 17
SpatialVx-0.1-1/SpatialVx/MD5 | 65 ++-
SpatialVx-0.1-1/SpatialVx/R/Features.R |only
SpatialVx-0.1-1/SpatialVx/R/Hoods2d.R | 353 ++++--------------
SpatialVx-0.1-1/SpatialVx/R/LocMeasures.R |only
SpatialVx-0.1-1/SpatialVx/R/Misc.R |only
SpatialVx-0.1-1/SpatialVx/R/SigFuns.R |only
SpatialVx-0.1-1/SpatialVx/R/functionals.R |only
SpatialVx-0.1-1/SpatialVx/R/smoothers.R |only
SpatialVx-0.1-1/SpatialVx/R/waverify.R |only
SpatialVx-0.1-1/SpatialVx/data/GFSNAMfcstEx.rda |only
SpatialVx-0.1-1/SpatialVx/data/GFSNAMlocEx.rda |only
SpatialVx-0.1-1/SpatialVx/data/GFSNAMobsEx.rda |only
SpatialVx-0.1-1/SpatialVx/data/UKfcst6.rda |only
SpatialVx-0.1-1/SpatialVx/data/UKloc.rda |only
SpatialVx-0.1-1/SpatialVx/data/UKobs6.rda |only
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SpatialVx-0.1-1/SpatialVx/man/FQI.Rd |only
SpatialVx-0.1-1/SpatialVx/man/FeatureAxis.Rd |only
SpatialVx-0.1-1/SpatialVx/man/FeatureMatchAnalyzer.Rd |only
SpatialVx-0.1-1/SpatialVx/man/FeatureSuite.Rd |only
SpatialVx-0.1-1/SpatialVx/man/Fourier2d.Rd | 23 -
SpatialVx-0.1-1/SpatialVx/man/GFSNAMfcstEx.Rd |only
SpatialVx-0.1-1/SpatialVx/man/GeoBoxPlot.Rd |only
SpatialVx-0.1-1/SpatialVx/man/LocSig.Rd |only
SpatialVx-0.1-1/SpatialVx/man/MCdof.Rd |only
SpatialVx-0.1-1/SpatialVx/man/SpatialVx-internal.Rd | 9
SpatialVx-0.1-1/SpatialVx/man/SpatialVx-package.Rd | 96 ++++
SpatialVx-0.1-1/SpatialVx/man/UKobs6.Rd |only
SpatialVx-0.1-1/SpatialVx/man/bearing.Rd |only
SpatialVx-0.1-1/SpatialVx/man/centdist.Rd |only
SpatialVx-0.1-1/SpatialVx/man/convthresh.Rd |only
SpatialVx-0.1-1/SpatialVx/man/datasets.Rd | 5
SpatialVx-0.1-1/SpatialVx/man/deltamm.Rd |only
SpatialVx-0.1-1/SpatialVx/man/fss2dfun.Rd | 17
SpatialVx-0.1-1/SpatialVx/man/hoods2d.Rd | 10
SpatialVx-0.1-1/SpatialVx/man/hoods2dPrep.Rd | 10
SpatialVx-0.1-1/SpatialVx/man/hoods2dsmooth.Rd |only
SpatialVx-0.1-1/SpatialVx/man/kernel2dmeitsjer.Rd |only
SpatialVx-0.1-1/SpatialVx/man/kernel2dsmooth.Rd |only
SpatialVx-0.1-1/SpatialVx/man/locmeasures2d.Rd |only
SpatialVx-0.1-1/SpatialVx/man/locmeasures2dPrep.Rd |only
SpatialVx-0.1-1/SpatialVx/man/locperf.Rd |only
SpatialVx-0.1-1/SpatialVx/man/metrV.Rd |only
SpatialVx-0.1-1/SpatialVx/man/pphindcast2d.Rd | 2
SpatialVx-0.1-1/SpatialVx/man/saller.Rd |only
SpatialVx-0.1-1/SpatialVx/man/spatbiasFS.Rd |only
SpatialVx-0.1-1/SpatialVx/man/surrogater2d.Rd |only
SpatialVx-0.1-1/SpatialVx/man/upscale2d.Rd |only
SpatialVx-0.1-1/SpatialVx/man/vxstats.Rd | 2
SpatialVx-0.1-1/SpatialVx/man/waveIS.Rd |only
SpatialVx-0.1-1/SpatialVx/man/wavePurifyVx.Rd |only
SpatialVx-0.1-1/SpatialVx/man/waverify2d.Rd |only
54 files changed, 300 insertions(+), 315 deletions(-)
Title: Persistent Homology in R
Diff between phom versions 1.0 dated 2012-02-14 and 1.0.1 dated 2012-03-13
Description: This package computes persistent homology of filtered
simplicial complexes, and provides facilities for constructing
complexes from geometric data.
Author: Andrew Tausz
Maintainer: Andrew Tausz
DESCRIPTION | 6 +++---
MD5 | 18 +++++++++---------
inst/CITATION | 4 ++--
inst/doc/phom.Rnw | 4 ++--
inst/doc/phom.pdf |binary
man/phom-package.Rd | 2 +-
src/basic_graph.h | 6 +++---
src/landmark_selector.h | 4 ++--
src/persistence_algorithm.h | 6 +++---
src/simplex_stream.h | 6 +++---
10 files changed, 28 insertions(+), 28 deletions(-)
Title: Normalize NanoString miRNA and mRNA data
Diff between NanoStringNorm versions 1.1.4 dated 2012-02-16 and 1.1.5 dated 2012-03-13
More information about NanoStringNorm at CRAN
Description: A set of tools for normalizing, diagnostics and
visualization of Nanostring nCounter data
Author: Daryl M. Waggott
Maintainer: Daryl Waggott
DESCRIPTION | 11 ++++++-----
MD5 | 14 +++++++-------
R/NanoStringNorm.R | 2 +-
R/Plot.NanoStringNorm.R | 29 +++++++++++++++++++++++------
R/Plot.NanoStringNorm.gvis.R | 12 +++++++-----
inst/doc/NanoStringNorm_Introduction.pdf |binary
man/Plot.NanoStringNorm.Rd | 2 +-
man/Plot.NanoStringNorm.gvis.Rd | 2 +-
8 files changed, 46 insertions(+), 26 deletions(-)
Permanent link
Title: Clinical Trial Design and Data Analysis Functions
Diff between clinfun versions 0.9.9 dated 2012-01-18 and 1.0.0 dated 2012-03-13
Description: Utilities to make your clinical collaborations easier if
not fun.
Author: Venkatraman E. Seshan
Maintainer: Venkatraman E. Seshan
CHANGES | 7 +++++++
DESCRIPTION | 6 +++---
MD5 | 10 +++++-----
R/toxbdry.R | 21 +++++++++++++--------
man/coxphERR.Rd | 3 ++-
man/toxbdry.Rd | 23 ++++++++++++++++++++++-
6 files changed, 52 insertions(+), 18 deletions(-)
Title: Basic wavelet routines for one-, two- and three-dimensional
signal processing
Diff between waveslim versions 1.6.4 dated 2010-06-10 and 1.7.1 dated 2012-03-13
Description: Basic wavelet routines for time series (1D), image (2D)
and array (3D) analysis. The code provided here is based on
wavelet methodology developed in Percival and Walden (2000);
Gencay, Selcuk and Whitcher (2001); the dual-tree complex
wavelet transform (DTCWT) from Kingsbury (1999, 2001) as
implemented by Selesnick; and Hilbert wavelet pairs (Selesnick
2001, 2002). All figures in chapters 4-7 of GSW (2001) are
reproducible using this package and R code available at the
book website(s) below.
Author: Brandon Whitcher
Maintainer: Brandon Whitcher
waveslim-1.6.4/waveslim/INDEX |only
waveslim-1.6.4/waveslim/data/acvs.andel10.R |only
waveslim-1.6.4/waveslim/data/acvs.andel10.txt |only
waveslim-1.6.4/waveslim/data/acvs.andel11.R |only
waveslim-1.6.4/waveslim/data/acvs.andel11.txt |only
waveslim-1.6.4/waveslim/data/acvs.andel8.R |only
waveslim-1.6.4/waveslim/data/acvs.andel8.txt |only
waveslim-1.6.4/waveslim/data/acvs.andel9.R |only
waveslim-1.6.4/waveslim/data/acvs.andel9.txt |only
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waveslim-1.6.4/waveslim/data/barbara.txt |only
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waveslim-1.6.4/waveslim/data/kobe.R |only
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waveslim-1.6.4/waveslim/data/tourism.R |only
waveslim-1.6.4/waveslim/data/tourism.txt |only
waveslim-1.6.4/waveslim/data/unemploy.R |only
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waveslim-1.6.4/waveslim/data/xbox.R |only
waveslim-1.6.4/waveslim/data/xbox.txt |only
waveslim-1.7.1/waveslim/DESCRIPTION | 20 +--
waveslim-1.7.1/waveslim/MD5 |only
waveslim-1.7.1/waveslim/NAMESPACE |only
waveslim-1.7.1/waveslim/R/Anton.R |only
waveslim-1.7.1/waveslim/R/bishrink.R |only
waveslim-1.7.1/waveslim/R/cov.R | 2
waveslim-1.7.1/waveslim/R/cplxdual2D.R | 31 ++---
waveslim-1.7.1/waveslim/R/dualtree2D.R | 142 ++++++++++-------------
waveslim-1.7.1/waveslim/R/misc.R | 4
waveslim-1.7.1/waveslim/R/shift.2d.R | 57 +++++----
waveslim-1.7.1/waveslim/R/soft.R |only
waveslim-1.7.1/waveslim/R/two_D.R | 4
waveslim-1.7.1/waveslim/data/acvs.andel10.rda |only
waveslim-1.7.1/waveslim/data/acvs.andel10.txt.xz |only
waveslim-1.7.1/waveslim/data/acvs.andel11.rda |only
waveslim-1.7.1/waveslim/data/acvs.andel11.txt.xz |only
waveslim-1.7.1/waveslim/data/acvs.andel8.rda |only
waveslim-1.7.1/waveslim/data/acvs.andel8.txt.xz |only
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waveslim-1.7.1/waveslim/data/cpi.rda |only
waveslim-1.7.1/waveslim/data/cpi.txt.xz |only
waveslim-1.7.1/waveslim/data/datalist |only
waveslim-1.7.1/waveslim/data/dau.rda |only
waveslim-1.7.1/waveslim/data/dau.txt.bz2 |only
waveslim-1.7.1/waveslim/data/doppler.rda |only
waveslim-1.7.1/waveslim/data/doppler.txt.bz2 |only
waveslim-1.7.1/waveslim/data/exchange.rda |only
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waveslim-1.7.1/waveslim/data/heavisine.rda |only
waveslim-1.7.1/waveslim/data/heavisine.txt.xz |only
waveslim-1.7.1/waveslim/data/ibm.rda |only
waveslim-1.7.1/waveslim/data/ibm.txt.gz |only
waveslim-1.7.1/waveslim/data/japan.rda |only
waveslim-1.7.1/waveslim/data/japan.txt.gz |only
waveslim-1.7.1/waveslim/data/jumpsine.rda |only
waveslim-1.7.1/waveslim/data/jumpsine.txt.gz |only
waveslim-1.7.1/waveslim/data/kobe.rda |only
waveslim-1.7.1/waveslim/data/kobe.txt.bz2 |only
waveslim-1.7.1/waveslim/data/linchirp.rda |only
waveslim-1.7.1/waveslim/data/linchirp.txt.bz2 |only
waveslim-1.7.1/waveslim/data/mexm.rda |only
waveslim-1.7.1/waveslim/data/mexm.txt.xz |only
waveslim-1.7.1/waveslim/data/nile.rda |only
waveslim-1.7.1/waveslim/data/tourism.rda |only
waveslim-1.7.1/waveslim/data/tourism.txt.gz |only
waveslim-1.7.1/waveslim/data/unemploy.rda |only
waveslim-1.7.1/waveslim/data/unemploy.txt.xz |only
waveslim-1.7.1/waveslim/data/xbox.rda |only
waveslim-1.7.1/waveslim/data/xbox.txt.bz2 |only
waveslim-1.7.1/waveslim/man/Farras.Rd | 15 +-
waveslim-1.7.1/waveslim/man/Thresholding.Rd | 2
waveslim-1.7.1/waveslim/man/bandpass.Rd | 4
waveslim-1.7.1/waveslim/man/convolve2D.Rd | 14 --
waveslim-1.7.1/waveslim/man/dualfilt1.Rd | 1
waveslim-1.7.1/waveslim/man/hosking.sim.Rd | 5
waveslim-1.7.1/waveslim/man/sdf.Rd | 5
waveslim-1.7.1/waveslim/man/shift.2d.Rd | 39 +++---
waveslim-1.7.1/waveslim/man/stack.plot.Rd | 10 -
waveslim-1.7.1/waveslim/src/dwt2.c | 109 ++++++++---------
waveslim-1.7.1/waveslim/src/dwt3.c | 28 ++--
111 files changed, 243 insertions(+), 249 deletions(-)
Title: A package for reading, manipulating and visualising magnetic
resonance images
Diff between tractor.base versions 2.0.8 dated 2011-11-17 and 2.1.0 dated 2012-03-13
Description: The tractor.base package consists of functions for working
with magnetic resonance images. It can read and write image
files stored in Analyze, NIfTI, MGH and DICOM formats (DICOM
support is read only), generate images for use as regions of
interest, and manipulate and visualise images.
Author: Jon Clayden
Maintainer: Jon Clayden
DESCRIPTION | 15 ++--
MD5 | 26 +++----
R/00_constants.R | 2
R/05_serialise.R | 18 +++--
R/08_sparse.R | 24 +-----
R/10_mri_image.R | 94 +++++++++++++++++++++++++-
R/15_dicom.R | 78 ++++++++++++++-------
R/files.R | 162 ++++++++++++++++++++++++++++++---------------
R/misc.R | 4 -
R/nifti.R | 21 +++--
R/vector.R | 13 +++
man/newMriImageFromFile.Rd | 3
man/path.Rd | 3
man/sortDicomDirectory.Rd | 5 -
14 files changed, 329 insertions(+), 139 deletions(-)
Title: classes and methods for spatio-temporal data
Diff between spacetime versions 0.5-7 dated 2011-11-15 and 0.6-0 dated 2012-03-13
Description: A package with classes and methods for spatio-temporal
data. In particular, space-time regular lattices, sparse
lattices, and irregular data are supported, with limited
support for trajectories, but not for topologies with S/T
interactions such as space-time prisms. Utility functions are
provided for plotting data as map sequences (lattice or
animation) or multiple time series; for spatial and temporal
selection, as well as methods for retrieving coordinates, for
subsetting, print, summary, etc.
Author: Edzer Pebesma, with contributions by Benedict Graeler and Tom
Gottfried
Maintainer: Edzer Pebesma
spacetime-0.5-7/spacetime/inst/doc/jss.bst |only
spacetime-0.5-7/spacetime/inst/doc/jss.cls |only
spacetime-0.5-7/spacetime/inst/doc/spacetime.bbl |only
spacetime-0.5-7/spacetime/inst/doc/spacetime.blg |only
spacetime-0.5-7/spacetime/man/STIDFtraj-class.Rd |only
spacetime-0.6-0/spacetime/DESCRIPTION | 21
spacetime-0.6-0/spacetime/MD5 | 61
spacetime-0.6-0/spacetime/NAMESPACE | 8
spacetime-0.6-0/spacetime/R/over.R | 150
spacetime-0.6-0/spacetime/R/stplot.R | 4
spacetime-0.6-0/spacetime/R/traj.R | 70
spacetime-0.6-0/spacetime/data/air.rda |binary
spacetime-0.6-0/spacetime/data/fires.rda |binary
spacetime-0.6-0/spacetime/demo/00Index | 1
spacetime-0.6-0/spacetime/demo/CW.R |only
spacetime-0.6-0/spacetime/inst/doc/cls.fig |only
spacetime-0.6-0/spacetime/inst/doc/cls.pdf |only
spacetime-0.6-0/spacetime/inst/doc/hov.pdf |only
spacetime-0.6-0/spacetime/inst/doc/produc.png |only
spacetime-0.6-0/spacetime/inst/doc/spacetime.Rnw | 1361 +
spacetime-0.6-0/spacetime/inst/doc/spacetime.bib | 42
spacetime-0.6-0/spacetime/inst/doc/spacetime.pdf |12731 +++++++++---------
spacetime-0.6-0/spacetime/inst/doc/sto.Rnw | 19
spacetime-0.6-0/spacetime/inst/doc/sto.pdf |binary
spacetime-0.6-0/spacetime/inst/doc/stpg.Rnw | 4
spacetime-0.6-0/spacetime/inst/doc/stpg.pdf |binary
spacetime-0.6-0/spacetime/inst/doc/ti.fig |only
spacetime-0.6-0/spacetime/inst/doc/ti.pdf |only
spacetime-0.6-0/spacetime/inst/doc/wind.pdf |only
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spacetime-0.6-0/spacetime/man/stconstruct.Rd | 2
spacetime-0.6-0/spacetime/man/timematch.Rd |only
spacetime-0.6-0/spacetime/tests/Rplots.pdf |only
spacetime-0.6-0/spacetime/tests/basic.Rout.save | 10
spacetime-0.6-0/spacetime/tests/over.Rout.save | 48
spacetime-0.6-0/spacetime/tests/stconstruct.Rout.save | 15
spacetime-0.6-0/spacetime/tests/traj.R | 120
spacetime-0.6-0/spacetime/tests/traj.Rout.save | 199
spacetime-0.6-0/spacetime/tests/wind.Rout.save | 4
40 files changed, 7574 insertions(+), 7296 deletions(-)
Title: eVenn: A powerful tool to compare lists and draw Venn diagrams.
Diff between eVenn versions 2.1.4 dated 2011-10-12 and 2.1.5 dated 2012-03-13
Description: Compute a matrix comparison of lists (from 2 to infinite)
and plot the results in a Venn diagram if (N<=4) with
regulation details. It allows to produce a complete annotated
file, merging the annotations of the compared lists. It is also
possible to compute an overlaps table to show the overlaps
proportions of all the couples of lists and draw proportional
Venn diagrams.
Author: Nicolas Cagnard
Maintainer: Nicolas Cagnard
DESCRIPTION | 8 +++----
MD5 | 10 ++++-----
R/evenn.R | 56 +++++++++++++++++++++++----------------------------
R/man.evenn.R | 22 ++++++++++----------
man/eVenn-package.Rd | 4 +--
man/evenn.Rd | 4 +--
6 files changed, 50 insertions(+), 54 deletions(-)
Title: Compute statistics helper functions
Diff between dostats versions 1.0-20120208 dated 2012-02-08 and 1.1.20120309 dated 2012-03-13
Description: A small package containing helper utilities for creating
function for computing statistics.
Author: Andrew Redd
Maintainer: Andrew Redd
dostats-1.0-20120208/dostats/.gitignore |only
dostats-1.1.20120309/dostats/DESCRIPTION | 16 ++++++----
dostats-1.1.20120309/dostats/MD5 | 29 +++++++++++++++----
dostats-1.1.20120309/dostats/NAMESPACE | 7 ++++
dostats-1.1.20120309/dostats/NEWS | 30 ++++++++++++--------
dostats-1.1.20120309/dostats/R/T.R |only
dostats-1.1.20120309/dostats/R/collect.R |only
dostats-1.1.20120309/dostats/R/compose.R | 16 ++++++++++
dostats-1.1.20120309/dostats/R/consecutive.R |only
dostats-1.1.20120309/dostats/R/dostats.R | 5 +--
dostats-1.1.20120309/dostats/R/onarg.R |only
dostats-1.1.20120309/dostats/R/widedf.R |only
dostats-1.1.20120309/dostats/README.md |only
dostats-1.1.20120309/dostats/inst/tests |only
dostats-1.1.20120309/dostats/man/T.Rd |only
dostats-1.1.20120309/dostats/man/collect.Rd |only
dostats-1.1.20120309/dostats/man/compose.Rd | 16 ++++++++++
dostats-1.1.20120309/dostats/man/contains.Rd |only
dostats-1.1.20120309/dostats/man/onarg.Rd |only
dostats-1.1.20120309/dostats/man/seq_consecutive.Rd |only
dostats-1.1.20120309/dostats/tests |only
21 files changed, 90 insertions(+), 29 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-03-13 1.0
Title: Analyze shot group data
Diff between shotGroups versions 0.1 dated 2012-03-07 and 0.2 dated 2012-03-13
Description: Analyzes shot group data: Read in data, plot, describe,
and compare shot groups. Perform statistical tests including
standard, nonparametric, and robust methods. Works with files
exported by OnTarget PC and OnTarget TDS.
Author: Daniel Wollschlaeger
Maintainer: Daniel Wollschlaeger
shotGroups-0.1/shotGroups/R/getBounds.r |only
shotGroups-0.1/shotGroups/R/getMaxRad.r |only
shotGroups-0.1/shotGroups/inst/NEWS.rd |only
shotGroups-0.2/shotGroups/DESCRIPTION | 8 -
shotGroups-0.2/shotGroups/MD5 | 77 +++++++-----
shotGroups-0.2/shotGroups/NAMESPACE | 2
shotGroups-0.2/shotGroups/R/analyzeGroup.R | 7 -
shotGroups-0.2/shotGroups/R/combineData.R | 4
shotGroups-0.2/shotGroups/R/compareGroups.R | 78 +++++++-----
shotGroups-0.2/shotGroups/R/draw.r | 7 -
shotGroups-0.2/shotGroups/R/getCEP.R |only
shotGroups-0.2/shotGroups/R/getConfEll.R |only
shotGroups-0.2/shotGroups/R/getMOA.R | 14 +-
shotGroups-0.2/shotGroups/R/getMaxNorm.r | 11 +
shotGroups-0.2/shotGroups/R/getMaxPairDist.R | 4
shotGroups-0.2/shotGroups/R/getMinBBox.R | 120 ++++++++-----------
shotGroups-0.2/shotGroups/R/getMinCircle.R | 58 +++++++--
shotGroups-0.2/shotGroups/R/groupLocation.r | 51 +++++---
shotGroups-0.2/shotGroups/R/groupShape.r | 121 ++++++++++++--------
shotGroups-0.2/shotGroups/R/groupSpread.r | 114 +++++++++++-------
shotGroups-0.2/shotGroups/R/readData.R | 22 +--
shotGroups-0.2/shotGroups/data/DFlistSavage.rda |only
shotGroups-0.2/shotGroups/data/DFlistTalon.rda |only
shotGroups-0.2/shotGroups/data/DFsavage.rda |only
shotGroups-0.2/shotGroups/data/DFtalon.rda |only
shotGroups-0.2/shotGroups/inst/ChangeLog | 27 ++++
shotGroups-0.2/shotGroups/man/DFcm.Rd | 2
shotGroups-0.2/shotGroups/man/DFinch.Rd | 2
shotGroups-0.2/shotGroups/man/DFlistCm.Rd | 2
shotGroups-0.2/shotGroups/man/DFlistInch.Rd | 2
shotGroups-0.2/shotGroups/man/DFlistSavage.Rd |only
shotGroups-0.2/shotGroups/man/DFlistTalon.Rd |only
shotGroups-0.2/shotGroups/man/DFsavage.Rd |only
shotGroups-0.2/shotGroups/man/DFtalon.Rd |only
shotGroups-0.2/shotGroups/man/analyzeGroup.Rd | 42 ++++--
shotGroups-0.2/shotGroups/man/compareGroups.Rd | 19 +--
shotGroups-0.2/shotGroups/man/drawEllipse.Rd | 2
shotGroups-0.2/shotGroups/man/fromMOA.Rd | 8 +
shotGroups-0.2/shotGroups/man/getCEP.Rd |only
shotGroups-0.2/shotGroups/man/getConfEll.Rd |only
shotGroups-0.2/shotGroups/man/getMOA.Rd | 6
shotGroups-0.2/shotGroups/man/getMaxPairDist.Rd | 7 -
shotGroups-0.2/shotGroups/man/getMinBBox.Rd | 3
shotGroups-0.2/shotGroups/man/groupLocation.Rd | 12 -
shotGroups-0.2/shotGroups/man/groupShape.Rd | 9 -
shotGroups-0.2/shotGroups/man/groupSpread.Rd | 39 +++---
shotGroups-0.2/shotGroups/man/shotGroups-package.Rd | 10 -
47 files changed, 533 insertions(+), 357 deletions(-)
Title: Testing for monotonic relationship between gene expression and
doses in a microarray experiment.
Diff between IsoGene versions 1.0-19 dated 2011-11-15 and 1.0-20 dated 2012-03-13
Description: Several testing procedures including the global likelihood
ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus
(1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007)
are used to test for the monotonic trend in gene expression
with respect to doses. BH (Benjamini and Hochberg 1995) and BY
(Benjamini and Yekutilie 2004) FDR controlling procedures are
applied to adjust the raw p-values obtained from the
permutations.
Author: Lin et al.
Maintainer: Martin Otava
IsoGene-1.0-19/IsoGene/inst/NEWS |only
IsoGene-1.0-19/IsoGene/inst/doc/.build.timestamp |only
IsoGene-1.0-19/IsoGene/inst/doc/mybook4.cls |only
IsoGene-1.0-19/IsoGene/inst/doc/psfig.sty |only
IsoGene-1.0-19/IsoGene/inst/doc/pupdn1b.png |only
IsoGene-1.0-19/IsoGene/inst/doc/stat1a.png |only
IsoGene-1.0-20/IsoGene/DESCRIPTION | 24 ++++++++++++-----------
IsoGene-1.0-20/IsoGene/MD5 | 21 ++++++++++----------
IsoGene-1.0-20/IsoGene/NEWS |only
IsoGene-1.0-20/IsoGene/R/Isoqval.R | 6 ++---
IsoGene-1.0-20/IsoGene/data/dopamine.rda |binary
IsoGene-1.0-20/IsoGene/data/exampleData.rda |binary
IsoGene-1.0-20/IsoGene/inst/doc/IsoGene.pdf |binary
IsoGene-1.0-20/IsoGene/vignettes |only
14 files changed, 27 insertions(+), 24 deletions(-)
Title: Bayesian variable selection and model choice for generalized
additive mixed models
Diff between spikeSlabGAM versions 1.0-0 dated 2011-09-07 and 1.1-0 dated 2012-03-13
Description: Bayesian variable selection, model choice, and regularized
estimation for (spatial) generalized additive mixed regression
models via SSVS with spike-and-slab priors.
Author: Fabian Scheipl
Maintainer: Fabian Scheipl
spikeSlabGAM-1.0-0/spikeSlabGAM/inst/doc/.timestamp |only
spikeSlabGAM-1.0-0/spikeSlabGAM/inst/doc/UsingSpikeSlabGAM.bib |only
spikeSlabGAM-1.0-0/spikeSlabGAM/inst/doc/a4wide.sty |only
spikeSlabGAM-1.0-0/spikeSlabGAM/inst/doc/jss.bst |only
spikeSlabGAM-1.0-0/spikeSlabGAM/inst/doc/jss.cls |only
spikeSlabGAM-1.1-0/spikeSlabGAM/DESCRIPTION | 14
spikeSlabGAM-1.1-0/spikeSlabGAM/MD5 | 66 +-
spikeSlabGAM-1.1-0/spikeSlabGAM/NAMESPACE | 60 --
spikeSlabGAM-1.1-0/spikeSlabGAM/R/plot.R | 104 ++--
spikeSlabGAM-1.1-0/spikeSlabGAM/R/predict.R | 4
spikeSlabGAM-1.1-0/spikeSlabGAM/R/spikeAndSlab.R | 116 ++--
spikeSlabGAM-1.1-0/spikeSlabGAM/R/spikeSlabGAM.R | 10
spikeSlabGAM-1.1-0/spikeSlabGAM/R/terms.R | 6
spikeSlabGAM-1.1-0/spikeSlabGAM/R/utils.R | 16
spikeSlabGAM-1.1-0/spikeSlabGAM/inst/CITATION | 6
spikeSlabGAM-1.1-0/spikeSlabGAM/inst/doc/UsingSpikeSlabGAM.Rnw | 16
spikeSlabGAM-1.1-0/spikeSlabGAM/inst/doc/UsingSpikeSlabGAM.pdf |binary
spikeSlabGAM-1.1-0/spikeSlabGAM/man/arrange.ggplots.Rd | 61 +-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/evalTerm.Rd | 55 +-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/fct.Rd | 25 -
spikeSlabGAM-1.1-0/spikeSlabGAM/man/getPosteriorTerm.Rd | 34 +
spikeSlabGAM-1.1-0/spikeSlabGAM/man/lin.Rd | 27 -
spikeSlabGAM-1.1-0/spikeSlabGAM/man/mrf.Rd | 78 ++-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/plot.spikeSlabGAM.Rd | 145 ++++-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/plotTerm.Rd | 108 +++-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/predict.spikeSlabGAM.Rd | 86 ++-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/print.summary.spikeSlabGAM.Rd | 53 +-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/rnd.Rd | 24
spikeSlabGAM-1.1-0/spikeSlabGAM/man/sm.Rd | 98 ++-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/spikeAndSlab.Rd | 248 ++++++----
spikeSlabGAM-1.1-0/spikeSlabGAM/man/spikeSlabGAM.Rd | 192 +++++--
spikeSlabGAM-1.1-0/spikeSlabGAM/man/srf.Rd | 122 +++-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/ssGAM2Bugs.Rd | 38 +
spikeSlabGAM-1.1-0/spikeSlabGAM/man/ssGAMDesign.Rd | 111 +++-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/summary.spikeSlabGAM.Rd | 65 +-
spikeSlabGAM-1.1-0/spikeSlabGAM/man/u.Rd | 25 -
spikeSlabGAM-1.1-0/spikeSlabGAM/vignettes |only
37 files changed, 1319 insertions(+), 694 deletions(-)
Title: Foreach looping construct for R
Diff between foreach versions 1.3.2 dated 2011-05-20 and 1.3.4 dated 2012-03-13
Description: Support for the foreach looping construct. Foreach is an
idiom that allows for iterating over elements in a collection,
without the use of an explicit loop counter. This package in
particular is intended to be used for its return value, rather
than for its side effects. In that sense, it is similar to the
standard lapply function, but doesn't require the evaluation of
a function. Using foreach without side effects also
facilitates executing the loop in parallel.
Author: Revolution Analytics
Maintainer: Revolution Analytics
DESCRIPTION | 8 +---
MD5 |only
NAMESPACE | 7 ++--
R/do.R | 84 +++++++++++++++++++++++++++++++++++++++++--------
R/foreach.R | 2 -
inst/doc/foreach.pdf |binary
inst/doc/nested.pdf |binary
man/getDoSeqWorkers.Rd |only
man/setDoSeq.Rd |only
tests/doRUnit.R | 4 +-
10 files changed, 81 insertions(+), 24 deletions(-)
Title: Fast hierarchical clustering routines for R and Python
Diff between fastcluster versions 1.1.5 dated 2012-02-15 and 1.1.6 dated 2012-03-13
Description: This is a two-in-one package which provides interfaces to
both R and Python. It implements fast hierarchical,
agglomerative clustering routines. Part of the functionality is
designed as drop-in replacement for existing routines:
“linkage” in the SciPy package “scipy.cluster.hierarchy”,
“hclust” in R's “stats” package, and the “flashClust” package.
It provides the same functionality, with the benefit of a much
faster implementation. Moreover, there are memory-saving
routines for clustering of vector data, which go beyond what
the existing packages provide. For information on how to
install the Python files, see the file INSTALL in the source
distribution.
Author: Daniel Müllner, http://math.stanford.edu/~muellner
Maintainer: Daniel Müllner
DESCRIPTION | 8 ++++----
MD5 | 20 ++++++++++----------
NEWS | 8 ++++++++
inst/CITATION | 4 ++--
inst/doc/fastcluster.Rtex | 6 +++---
inst/doc/fastcluster.pdf |binary
python/fastcluster.py | 2 +-
python/setup.py | 2 +-
python/test/test.py | 14 +++++++++-----
python/test/vectortest.py | 15 +++++++++------
src/fastcluster_python.cpp | 41 ++++++++++++++++++++++++++---------------
11 files changed, 73 insertions(+), 47 deletions(-)
Title: Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, and
some slider functions
Diff between aplpack versions 1.2.4 dated 2011-11-03 and 1.2.6 dated 2012-03-13
Description: set of functions for drawing some special plots: stem.leaf
plots a stem and leaf plot stem.leaf.backback plots
back-to-back versions of stem and leafs bagplot plots a bagplot
faces plots chernoff faces spin3R for an inspection of a 3-dim
point cloud slider functions for interactive graphics
Author: Peter Wolf, Uni Bielefeld
Maintainer: Peter Wolf
DESCRIPTION | 19
MD5 | 22 -
NAMESPACE | 2
R/slider.R | 48 +-
R/stem.leaf.R | 606 +++++++++++++++++++++++++--
inst/doc/sliderfns.pdf |binary
inst/src/bagplot.rev | 7
inst/src/faces.rev | 10
inst/src/ms.rev | 1074 ++++++++++++++++++++++++++++++++++++++++++++-----
man/bagplot.Rd | 4
man/faces.Rd | 4
man/stem.leaf.Rd | 40 +
12 files changed, 1623 insertions(+), 213 deletions(-)