Title: Seismic Hypocenter Determination
Diff between Rquake versions 1.2-2 dated 2012-01-25 and 1.3-2 dated 2012-02-01
Description: Rquake is a package for analaysis of seismic data
collected continuously, or in trigger mode. The functions
organize other functions from RSEIS and GEOmap to help
researchers pick, locate, and store hypocenters for detailed
seismic investigation.
Author: Jonathan M. Lees
Maintainer: Jonathan M. Lees
DESCRIPTION | 6 ++--
MD5 | 37 ++++++++++++++++++++---------
R/EQXYresid.R | 4 ++-
R/Gfirstguess.R |only
R/Klocate.R |only
R/NLSlocate.R | 4 ++-
R/PCfiledatetime.R |only
R/PCsaveWPX.R |only
R/PFoutput.R | 2 -
R/RQ.R | 33 +++++++++++++++++++++-----
R/SaveCSV.R |only
R/SavePF.R | 2 -
R/Y2Pphase.R | 10 ++++----
R/defaultVEL.R |only
R/gMAP.R | 4 +--
R/latlonz2wpx.R |only
R/viewCHAC.R | 18 +++++++++++---
man/Gfirstguess.Rd |only
man/Klocate.Rd |only
man/PCfiledatetime.Rd |only
man/PCsaveWPX.Rd |only
man/Y2Pphase.Rd | 17 ++++++++-----
man/clusterWPX.Rd | 2 -
man/defaultVEL.Rd |only
man/latlonz2wpx.Rd |only
man/viewCHAC.Rd | 62 +++++++++++++++++++++++++++++++++++++++++++++-----
26 files changed, 152 insertions(+), 49 deletions(-)
Title: Parametric linkage analysis in R
Diff between paramlink versions 0.3-1 dated 2011-10-15 and 0.6-1 dated 2012-02-01
Description: Parametric linkage analysis and other likelihood-based
pedigree analyses based on the Elston-Stewart algorithm,
including singlepoint LOD scores, power analysis and various
marker genotype distributions. Multipoint analysis is provided
through a convenient MERLIN wrapper. Includes many utility
functions for creating, manipulating and plotting pedigrees,
markers and linkage results.
Author: Magnus Dehli Vigeland
Maintainer: Magnus Dehli Vigeland
paramlink-0.3-1/paramlink/R/genoDistr.R |only
paramlink-0.3-1/paramlink/R/read.linkdat.R |only
paramlink-0.3-1/paramlink/man/genoDistr.Rd |only
paramlink-0.3-1/paramlink/man/read.linkdat.Rd |only
paramlink-0.3-1/paramlink/man/setSim.Rd |only
paramlink-0.6-1/paramlink/ChangeLog.txt |only
paramlink-0.6-1/paramlink/DESCRIPTION | 26 -
paramlink-0.6-1/paramlink/MD5 | 92 ++-
paramlink-0.6-1/paramlink/NAMESPACE | 2
paramlink-0.6-1/paramlink/R/SNPsim.R | 107 ++--
paramlink-0.6-1/paramlink/R/SNPsim2.R |only
paramlink-0.6-1/paramlink/R/as.data.frame.linkdat.R | 52 +-
paramlink-0.6-1/paramlink/R/createPedigree.R | 14
paramlink-0.6-1/paramlink/R/likelihood.R | 98 +++-
paramlink-0.6-1/paramlink/R/linkage.power.R | 31 -
paramlink-0.6-1/paramlink/R/linkdat.R | 138 +----
paramlink-0.6-1/paramlink/R/linkdat.utils.R | 120 +++-
paramlink-0.6-1/paramlink/R/linkres.R | 64 ++
paramlink-0.6-1/paramlink/R/lod.R | 60 +-
paramlink-0.6-1/paramlink/R/markers.R | 413 ++++++++++++-----
paramlink-0.6-1/paramlink/R/merlin.R |only
paramlink-0.6-1/paramlink/R/modify.R | 175 +++----
paramlink-0.6-1/paramlink/R/multiallel.R |only
paramlink-0.6-1/paramlink/R/oneMarkerDistribution.R |only
paramlink-0.6-1/paramlink/R/plot.linkdat.R | 78 +--
paramlink-0.6-1/paramlink/R/print.linkdat.R | 48 +
paramlink-0.6-1/paramlink/R/setMap.R |only
paramlink-0.6-1/paramlink/R/setModel.R | 20
paramlink-0.6-1/paramlink/R/subset.linkdat.R | 21
paramlink-0.6-1/paramlink/R/twoMarkerDistribution.R |only
paramlink-0.6-1/paramlink/R/write.linkdat.R | 49 +-
paramlink-0.6-1/paramlink/data/Xped.rda |binary
paramlink-0.6-1/paramlink/data/dominant.rda |binary
paramlink-0.6-1/paramlink/data/toyped.rda |binary
paramlink-0.6-1/paramlink/data/twoloops.rda |only
paramlink-0.6-1/paramlink/inst |only
paramlink-0.6-1/paramlink/man/SNPsim.Rd | 22
paramlink-0.6-1/paramlink/man/Xped.Rd | 5
paramlink-0.6-1/paramlink/man/createPedigree.Rd | 27 -
paramlink-0.6-1/paramlink/man/dominant.Rd | 6
paramlink-0.6-1/paramlink/man/genotypeDistribution.Rd |only
paramlink-0.6-1/paramlink/man/likelihood.Rd | 17
paramlink-0.6-1/paramlink/man/linkage.power.Rd | 39 -
paramlink-0.6-1/paramlink/man/linkdat.Rd | 127 +++--
paramlink-0.6-1/paramlink/man/linkdat.utils.Rd | 46 +
paramlink-0.6-1/paramlink/man/linkres.Rd | 22
paramlink-0.6-1/paramlink/man/lod.Rd | 58 +-
paramlink-0.6-1/paramlink/man/markers.Rd | 91 ++-
paramlink-0.6-1/paramlink/man/merlin.Rd |only
paramlink-0.6-1/paramlink/man/modify.Rd | 38 +
paramlink-0.6-1/paramlink/man/plot.linkdat.Rd | 28 -
paramlink-0.6-1/paramlink/man/randomPed.Rd | 2
paramlink-0.6-1/paramlink/man/setAvailable.Rd |only
paramlink-0.6-1/paramlink/man/toyped.Rd | 3
paramlink-0.6-1/paramlink/man/twoMarkerDistribution.Rd |only
paramlink-0.6-1/paramlink/man/twoloops.Rd |only
56 files changed, 1389 insertions(+), 750 deletions(-)
Title: bild: a package for BInary Longitudinal Data
Diff between bild versions 1.0-3 dated 2012-01-28 and 1.0-4 dated 2012-02-01
Description: bild performs logistic regression for binary longitudinal
data, allowing for serial dependence among observations from a
given individual and a random intercept term. Estimation is via
maximization of the exact likelihood of a suitably defined
model. Missing values and unbalanced data are allowed, with
some restrictions.
Author: M. Helena Gonçalves, M. Salomé Cabral and Adelchi Azzalini,
apart from a set of Fortran-77 subroutines written by R.
Piessens and E. de Doncker, belonging to the suite "Quadpack"
Maintainer: M. Helena Gonçalves
DESCRIPTION | 8 ++--
MD5 | 10 ++---
history.txt | 27 +++++++++-----
inst/CITATION | 99 +++++++++++++++++++++++++---------------------------
man/bild-package.Rd | 4 +-
man/bild.Rd | 4 +-
6 files changed, 80 insertions(+), 72 deletions(-)
Title: GUI Tool for Data Management like SPSS or Stata
Diff between Rz versions 0.3-3 dated 2012-01-31 and 0.3-6 dated 2012-02-01
Description: R is very powerfull but not enough for social science
becouse of lack in some functionality for managing survey data
SPSS or Stata provides. Memisc package supplements these,
variable labels, value labels, definable missing values and so
on, but to efficiently work these functions need graphical
interface to overlook data. This package provides such
graphical interface similar to SPSS's Variable View and data
managing system using memisc package as backend. Additionally,
Rz has powerful plot assistant interface based on ggplot2.
Author: Masahiro Hayashi
Maintainer: Masahiro Hayashi
DESCRIPTION | 8 -
MD5 | 16 +-
NEWS | 49 +++---
R/RzActionGroup.R | 134 +++++++++---------
R/RzDataView.R | 25 +++
R/RzMenu.R | 2
R/RzSettings.R | 381 ++++++++++++++++++++++++++++--------------------------
R/zzz.R | 11 -
misc.R | 377 ++++++++++++++++++++++++++---------------------------
9 files changed, 527 insertions(+), 476 deletions(-)
Title: Interface between GRASS 6+ geographical information system and R
Diff between spgrass6 versions 0.7-4 dated 2011-09-16 and 0.7-8 dated 2012-02-01
Description: Interpreted interface between GRASS 6+ geographical
information system and R, based on starting R from within the
GRASS environment, or running free-standing R in a temporary
GRASS location; the package provides facilities for using all
GRASS commands from the R command line.
Author: Roger Bivand
Maintainer: Roger Bivand
ChangeLog | 515 ++++++++++++++++++++++++++++++++--------------
DESCRIPTION | 11
MD5 | 26 +-
NAMESPACE | 2
R/AAA.R | 2
R/bin_link.R | 325 +++++++++++++++++++----------
R/options.R | 31 +-
R/vect_link.R | 16 -
R/xml1.R | 4
inst/ChangeLog | 515 ++++++++++++++++++++++++++++++++--------------
inst/doc/spgrass6_0.3.pdf |binary
man/readRAST6.Rd | 49 ++--
man/readVECT6.Rd | 1
man/spgrass6.Rd | 1
14 files changed, 1012 insertions(+), 486 deletions(-)
Title: classes and methods for spatial data
Diff between sp versions 0.9-93 dated 2011-12-21 and 0.9-94 dated 2012-02-01
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location
information resides, for 2D or 3D data. Utility functions are
provided, e.g. for plotting data as maps, spatial selection, as
well as methods for retrieving coordinates, for subsetting,
print, summary, etc.
Author: Edzer Pebesma
Maintainer: Edzer Pebesma
sp-0.9-93/sp/ChangeLog |only
sp-0.9-94/sp/DESCRIPTION | 20 +++--
sp-0.9-94/sp/MD5 | 41 +++++-------
sp-0.9-94/sp/R/Class-SpatialGrid.R | 27 ++-----
sp-0.9-94/sp/R/Class-SpatialGridDataFrame.R | 6 -
sp-0.9-94/sp/R/SpatialGrid-methods.R | 44 +++++++-----
sp-0.9-94/sp/R/SpatialGridDataFrame-methods.R | 17 ++---
sp-0.9-94/sp/R/gridded.R | 63 ++++--------------
sp-0.9-94/sp/R/image.R | 3
sp-0.9-94/sp/R/over.R | 15 ++++
sp-0.9-94/sp/R/overlay.R | 13 +++
sp-0.9-94/sp/inst/ChangeLog | 85 +++++++++++++++++++++++++
sp-0.9-94/sp/inst/doc/over.pdf |binary
sp-0.9-94/sp/inst/doc/sp.pdf |binary
sp-0.9-94/sp/inst/external/.RData |only
sp-0.9-94/sp/man/00sp.Rd | 4 -
sp-0.9-94/sp/man/SpatialGrid-class.Rd | 3
sp-0.9-94/sp/man/SpatialGridDataFrame-class.Rd | 4 -
sp-0.9-94/sp/man/over.Rd | 10 ++
sp-0.9-94/sp/man/overlay-methods.Rd | 4 +
sp-0.9-94/sp/tests/fail1.R | 11 +++
sp-0.9-94/sp/tests/fail1.Rout.save | 13 +++
sp-0.9-94/sp/tests/grid.Rout.save | 5 -
23 files changed, 244 insertions(+), 144 deletions(-)
Title: Automatic Text Classification via Supervised Learning
Diff between RTextTools versions 1.3.5 dated 2012-01-16 and 1.3.6 dated 2012-02-01
Description: RTextTools is a machine learning package for automatic
text classification that makes it simple for novice users to
get started with machine learning, while allowing experienced
users to easily experiment with different settings and
algorithm combinations. The package includes nine algorithms
for ensemble classification (svm, slda, boosting, bagging,
random forests, glmnet, decision trees, neural networks,
maximum entropy), comprehensive analytics, and thorough
documentation.
Author: Timothy P. Jurka, Loren Collingwood, Amber E. Boydstun,
Emiliano Grossman, Wouter van Atteveldt
Maintainer: Timothy P. Jurka
ChangeLog | 8 ++++++++
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/create_matrix.R | 13 +++++++++----
man/create_matrix.Rd | 17 ++++++++++++-----
5 files changed, 37 insertions(+), 17 deletions(-)
Title: Ridge regression and other kernels for genomic selection
Diff between rrBLUP versions 3.2 dated 2012-01-24 and 3.3 dated 2012-02-01
Description: One application is to estimate marker effects by ridge
regression; alternatively, BLUPs can be calculated based on
kinship. The genetic covariance between lines can be modeled
using a marker-based, additive relationship matrix, or via
Gaussian and exponential kernels.
Author: Jeffrey Endelman
Maintainer: Jeffrey Endelman
rrBLUP-3.2/rrBLUP/R/impute.R |only
rrBLUP-3.2/rrBLUP/man/impute.Rd |only
rrBLUP-3.3/rrBLUP/DESCRIPTION | 9 +-
rrBLUP-3.3/rrBLUP/MD5 | 16 +---
rrBLUP-3.3/rrBLUP/NAMESPACE | 2
rrBLUP-3.3/rrBLUP/NEWS | 5 +
rrBLUP-3.3/rrBLUP/R/A.mat.R | 118 ++++++++++++++++++++++----------
rrBLUP-3.3/rrBLUP/man/A.mat.Rd | 18 ++--
rrBLUP-3.3/rrBLUP/man/GWA.Rd | 5 -
rrBLUP-3.3/rrBLUP/man/rrBLUP-package.Rd | 6 -
10 files changed, 115 insertions(+), 64 deletions(-)
Title: Functional time series analysis
Diff between ftsa versions 3.0 dated 2012-01-20 and 3.1 dated 2012-02-01
Description: Functions for functional time series
Author: Rob J Hyndman and Han Lin Shang
Maintainer: Han Lin Shang
CHANGELOG | 4 ++++
DESCRIPTION | 8 ++++----
MD5 | 10 +++++-----
R/mase.R | 25 +++++++++++++------------
R/mdase.R | 25 +++++++++++++------------
R/rmsse.R | 26 ++++++++++++++------------
6 files changed, 53 insertions(+), 45 deletions(-)