Title: Resource Selection (Probability) Functions for Use-Availability
Data
Diff between ResourceSelection versions 0.1-5 dated 2012-09-13 and 0.2-0 dated 2012-10-02
More information about ResourceSelection at CRAN
Description: Resource Selection (Probability) Functions for
use-availability wildlife data as described in Lele and Keim
(2006, Ecology 87, 3021--3028), and Lele (2009, J. Wildlife
Management 73, 122--127).
Author: Subhash R. Lele, Jonah L. Keim, Peter Solymos
Maintainer: Peter Solymos
DESCRIPTION | 8 ++++----
MD5 | 21 +++++++++++++--------
NAMESPACE | 5 +++--
R/CAIC.R |only
R/CAIC.default.R |only
R/predict.rsf.R | 4 +++-
R/rsf.fit.R | 8 +-------
R/simulateUseAvail.R |only
R/vcov.rsf.R | 2 +-
inst/ChangeLog | 9 ++++++++-
man/CAIC.Rd |only
man/goats.Rd | 6 ++++--
man/rsf.Rd | 14 ++------------
man/simulateUsedAvail.Rd |only
14 files changed, 39 insertions(+), 38 deletions(-)
Permanent link
Title: Inference for QTL Hotspots
Diff between qtlhot versions 0.6.4 dated 2012-09-27 and 0.6.6 dated 2012-10-02
Description: Functions to infer co-mapping trait hotspots and causal
models
Author: Elias Chaibub Neto
Maintainer: Brian S. Yandell
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
R/cmst.R | 24 ++++++++++++++----------
R/hotperm.R | 20 ++++++++++++++------
inst/doc/cmst.pdf |binary
inst/doc/qtlhot.pdf |binary
man/GetCandReg.Rd | 10 ++++++----
man/hotperm.Rd | 4 +++-
8 files changed, 48 insertions(+), 32 deletions(-)
Title: Converting R CRAN outputs into Google Earth.
Diff between R2G2 versions 1.0 dated 2012-03-28 and 1.0-1 dated 2012-10-02
Description: Converting R CRAN outputs into Google Earth.
Author: Nils Arrigo
Maintainer: Nils Arrigo
DESCRIPTION | 6 +-
MD5 | 18 ++++---
R/Hist2GE.R | 2
R/Overlay2GE.R |only
R/Pies2GE.R | 121 ++++++++++++++++++++++++++++++----------------------
man/Hist2GE.Rd | 71 ++++++++++++++++++++++++++++--
man/Overlay2GE.Rd |only
man/Phylo2GE.Rd | 15 +++---
man/Pies2GE.Rd | 27 ++++++++---
man/R2G2-package.Rd | 5 +-
man/grid50.Rd | 21 +++++++--
11 files changed, 202 insertions(+), 84 deletions(-)
Title: Generalized Nonlinear Models
Diff between gnm versions 1.0-5 dated 2012-09-30 and 1.0-6 dated 2012-10-02
Description: Functions to specify and fit generalized nonlinear models,
including models with multiplicative interaction terms such as
the UNIDIFF model from sociology and the AMMI model from crop
science, and many others. Over-parameterized representations
of models are used throughout; functions are provided for
inference on estimable parameter combinations, as well as
standard methods for diagnostics etc.
Author: Heather Turner and David Firth
Maintainer: Heather Turner
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/gnmFit.R | 6 +++++-
inst/NEWS | 8 ++++++++
inst/doc/gnmOverview.pdf |binary
5 files changed, 21 insertions(+), 9 deletions(-)
Title: Diversity-dependent diversification
Diff between DDD versions 1.4 dated 2012-09-24 and 1.5 dated 2012-10-02
Description: DDD implements maximum likelihood methods based on the
diversity-dependent birth-death process to test whether
speciation or extinction are diversity-dependent. See Etienne
et al. 2012, Proc. Roy. Soc. B 279: 1300-1309, doi:
10.1098/rspb.2011.1439. DDD also implements a maximum
likelihood method to detect key innovations defined as
decoupling of diversity-dependence. See Etienne & Haegeman
2012, Am. Nat. In press, doi: 10.1086/667574.
Author: Rampal S. Etienne & Bart Haegeman
Maintainer: Rampal S. Etienne
DDD-1.4/DDD/DDD-Ex.timings |only
DDD-1.4/DDD/DDD-manual.pdf |only
DDD-1.5/DDD/DESCRIPTION | 8 ++++----
DDD-1.5/DDD/MD5 | 22 ++++++++++------------
DDD-1.5/DDD/R/dd_KI_ML.R | 9 ++++++---
DDD-1.5/DDD/R/dd_ML.R | 14 +++++++++-----
DDD-1.5/DDD/R/dd_SR_ML.R | 9 +++++++--
DDD-1.5/DDD/man/DDD-package.Rd | 11 ++++++++---
DDD-1.5/DDD/man/dd_KI_ML.Rd | 27 +++++++++++++++++----------
DDD-1.5/DDD/man/dd_KI_loglik.Rd | 2 +-
DDD-1.5/DDD/man/dd_ML.Rd | 28 ++++++++++++++++++----------
DDD-1.5/DDD/man/dd_SR_ML.Rd | 25 ++++++++++++++++---------
DDD-1.5/DDD/man/dd_SR_loglik.Rd | 2 +-
13 files changed, 97 insertions(+), 60 deletions(-)
Title: Regression estimation based on the compound shrinkage method
under the Cox proportional hazard model
Diff between compound.Cox versions 1.0 dated 2012-04-16 and 1.1 dated 2012-10-02
Description: Calculate regression coefficients and their standard
deviations under the Cox proportional hazard model with the
large number of covariates.
Author: Takeshi Emura & Yi-Hau Chen
Maintainer: Takeshi Emura, Graduate Institute of Statistics, National
Central University, Taiwan
DESCRIPTION | 14 ++++-----
MD5 | 11 ++++---
R/compound.Cox-internal.R |only
R/compound.reg.R | 27 ++++++++++++++----
man/PBC.Rd | 7 ++--
man/compound.Cox-package.Rd | 15 ++++------
man/compound.reg.Rd | 63 +++++++++++++++++++++++---------------------
7 files changed, 78 insertions(+), 59 deletions(-)
Title: Tools for parsing and generating XML within R and S-Plus.
Diff between XML versions 3.95-0 dated 2012-09-30 and 3.95-0.1 dated 2012-10-02
Description: This package provides many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. It also offers access to an
XPath "interpreter".
Author: Duncan Temple Lang
Maintainer: Duncan Temple Lang
XML-3.95-0.1/XML/CRAN_changes |only
XML-3.95-0.1/XML/DESCRIPTION | 6 +++---
XML-3.95-0.1/XML/MD5 | 7 ++++---
XML-3.95-0.1/XML/configure.win |only
XML-3.95-0.1/XML/src/Makevars.win | 30 ++----------------------------
XML-3.95-0/XML/symbols.rds |only
6 files changed, 9 insertions(+), 34 deletions(-)
Title: Sparse Lightweight Arrays and Matrices
Diff between slam versions 0.1-25 dated 2012-09-03 and 0.1-26 dated 2012-10-02
Description: Data structures and algorithms for sparse arrays and
matrices, based on index arrays and simple triplet
representations, respectively.
Author: Kurt Hornik, David Meyer, Christian Buchta
Maintainer: Kurt Hornik
DESCRIPTION | 8 +-
MD5 | 26 +++++---
NAMESPACE | 7 ++
R/array.R | 121 +++++++++++++++++++++++++++++++++--------
R/matrix.R | 134 ++++++++++++++++++++++++++++++++++++----------
R/reduce.R | 2
R/rollup.R | 17 +++--
R/subassign.R |only
man/array.Rd | 4 +
src/util.c | 126 +++++++++++++++++++++++++++++++++----------
tests/dimgets.R |only
tests/extract.R |only
tests/extract.Rout.save |only
tests/subassign.R |only
tests/subassign.Rout.save |only
tests/util.R | 12 +++-
tests/util.Rout.save | 32 ++++++++--
17 files changed, 379 insertions(+), 110 deletions(-)
Title: General network (HTTP/FTP/...) client interface for R
Diff between RCurl versions 1.95-0 dated 2012-09-30 and 1.95-0.1 dated 2012-10-02
Description: The package allows one to compose general HTTP requests
and provides convenient functions to fetch URIs, get & post
forms, etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP/FTP/...
connection and the form of the request while providing a
higher-level interface than is available just using R socket
connections. Additionally, the underlying implementation is
robust and extensive, supporting FTP/FTPS/TFTP (uploads and
downloads), SSL/HTTPS, telnet, dict, ldap, and also supports
cookies, redirects, authentication, etc.
Author: Duncan Temple Lang
Maintainer: Duncan Temple Lang
CRAN_changes |only
DESCRIPTION | 6 +++---
MD5 | 9 +++++----
configure.win | 12 ++++++++----
src/Makevars.win | 11 +++++++----
src/json.c | 4 +---
6 files changed, 24 insertions(+), 18 deletions(-)
Title: Joint Modeling of Longitudinal and Time-to-Event Data under a
Bayesian Approach
Diff between JMbayes versions 0.1-1 dated 2012-09-17 and 0.2-0 dated 2012-10-02
Description: Shared parameter models for the joint modeling of
longitudinal and time-to-event data using JAGS, WinBUGS, or
OpenBUGS.
Author: Dimitris Rizopoulos [aut, cre]
Maintainer: Dimitris Rizopoulos
DESCRIPTION | 8 ++++----
MD5 | 15 ++++++++-------
R/S.b.R | 3 ++-
R/jointModelBayes.R | 18 +++++++++++++-----
R/log.posterior.b.R | 3 ++-
inst |only
man/JMbayes.Rd | 4 ++--
man/jointModelBayes.Rd | 2 ++
man/survfitJM.Rd | 2 +-
9 files changed, 34 insertions(+), 21 deletions(-)
Title: Inline C, C++, Fortran function calls from R
Description: Functionality to dynamically define R functions and S4
methods with in-lined C, C++ or Fortran code supporting .C and
.Call calling conventions.
Author: Oleg Sklyar, Duncan Murdoch, Mike Smith, Dirk Eddelbuettel,
Romain Francois
Maintainer: ORPHANED
Diff between inline versions 0.3.8 dated 2010-12-07 and 0.3.9 dated 2012-10-02
DESCRIPTION | 12 ++++++------ MD5 |only R/cfunction.R | 6 +++--- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Forecast verification utilities.
Diff between verification versions 1.34 dated 2012-07-11 and 1.35 dated 2012-10-02
Description: This package contains utilities for verification of
discrete,continuous, probabilistic forecasts and forecast
expressed as parametric distributions.
Author: NCAR - Research Application Program
Maintainer: Eric Gilleland
DESCRIPTION | 6
MD5 | 52 +++----
R/table.stats.R | 16 +-
inst/doc/verification.pdf |binary
man/attribute.Rd | 213 ++++++++++++++---------------
man/brier.Rd | 2
man/conditional.quantile.Rd | 5
man/crps.Rd | 2
man/crpsDecompostion.Rd | 5
man/discrimination.plot.Rd | 8 -
man/fss.Rd | 15 +-
man/leps.Rd | 2
man/lines.verify.Rd | 2
man/measurement.error.Rd | 2
man/multi.cont.Rd | 100 ++++++-------
man/observation.error.Rd | 2
man/performance.diagram.Rd | 66 ++++-----
man/plot.int.scale.Rd | 2
man/probcont2disc.Rd | 2
man/reliability.plot.Rd | 2
man/roc.area.Rd | 2
man/roc.plot.Rd | 317 ++++++++++++++++++++++----------------------
man/rps.Rd | 2
man/table.stats.Rd | 58 +++-----
man/table.stats.boot.Rd | 2
man/value.Rd | 5
man/verify.Rd | 2
27 files changed, 453 insertions(+), 439 deletions(-)
Title: TSdbi extensions for PADI Time Series Server
Diff between TSpadi versions 2012.4-1 dated 2012-05-03 and 2012.8-1 dated 2012-10-02
Description: Provides methods for generics in the TSdbi package to
connect through a protocol for application database interface
(PADI) to a time series database (e.g. Fame). Comprehensive
examples of all the TS* packages is provided in the vignette
Guide.pdf with the TSdata package.
Author: Paul Gilbert
Maintainer: Paul Gilbert
DESCRIPTION | 17 +++---
MD5 | 11 ++--
NEWS | 10 +++
R/padi.R | 12 ++--
inst/doc/Guide.Stex |only
inst/doc/Guide.pdf |binary
vignettes/Guide.Stex | 134 ++++-----------------------------------------------
7 files changed, 43 insertions(+), 141 deletions(-)
Title: TSdbi extensions for MySQL
Diff between TSMySQL versions 2012.4-1 dated 2012-05-03 and 2012.8-1 dated 2012-10-02
Description: TSMySQL provides a MySQL interface for TSdbi.
Comprehensive examples of all the TS* packages is provided in
the vignette Guide.pdf with the TSdata package.
Author: Paul Gilbert
Maintainer: Paul Gilbert
DESCRIPTION | 14 -
MD5 | 9
NEWS | 4
inst/doc/Guide.Stex |only
inst/doc/Guide.pdf |binary
vignettes/Guide.Stex | 515 +--------------------------------------------------
6 files changed, 31 insertions(+), 511 deletions(-)
Title: R tools for integrating phylogenies and ecology
Diff between picante versions 1.4-2 dated 2012-09-22 and 1.5-1 dated 2012-10-02
Description: Phylocom integration, community analyses, null-models,
traits and evolution in R
Author: Steven W. Kembel
Maintainer: Steven W. Kembel
DESCRIPTION | 8 ++++----
MD5 | 8 +++++---
R/expected.pd.R |only
inst/doc/picante-intro.pdf |binary
man/expected.pd.Rd |only
man/picante-package.Rd | 4 ++--
6 files changed, 11 insertions(+), 9 deletions(-)
Title: Non-clustered heatmap alternatives
Diff between NeatMap versions 0.3.5 dated 2012-03-16 and 0.3.6 dated 2012-10-02
Description: NeatMap is a package to create heatmap like plots in 2 and
3 dimensions, without the need for cluster analysis. Like the
heatmap, the plots created by NeatMap display both a
dimensionally reduced representation of the data as well as the
data itself. They are intended to be used in conjunction with
dimensional reduction techniques such as PCA.
Author: Satwik Rajaram and Yoshi Oono
Maintainer: Satwik Rajaram
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/Dendrogram3D.R | 4 ++--
R/LinePlot.R | 2 +-
R/ProfilePlot3D.R | 8 ++++----
5 files changed, 15 insertions(+), 15 deletions(-)
Title: Lasso and elastic-net regularized generalized linear models
Diff between glmnet versions 1.8 dated 2012-07-03 and 1.8-2 dated 2012-10-02
Description: Extremely efficient procedures for fitting the entire
lasso or elastic-net regularization path for linear regression,
logistic and multinomial regression models, poisson regression
and the Cox model. Two recent additions are the multiresponse
gaussian, and the grouped multinomial. The algorithm uses
cyclical coordinate descent in a pathwise fashion, as described
in the paper listed below.
Author: Jerome Friedman, Trevor Hastie, Rob Tibshirani
Maintainer: Trevor Hastie
glmnet-1.8-2/glmnet/DESCRIPTION | 8
glmnet-1.8-2/glmnet/MD5 | 23
glmnet-1.8-2/glmnet/NAMESPACE | 1
glmnet-1.8-2/glmnet/R/coxnet.R | 2
glmnet-1.8-2/glmnet/R/jerr.lognet.R | 1
glmnet-1.8-2/glmnet/R/nonzeroCoef.R | 2
glmnet-1.8-2/glmnet/configure | 2759 +++++++++++++++-------------
glmnet-1.8-2/glmnet/configure.in | 52
glmnet-1.8-2/glmnet/configure.win | 10
glmnet-1.8-2/glmnet/inst/doc/Coxnet.pdf |binary
glmnet-1.8-2/glmnet/inst/mortran |only
glmnet-1.8-2/glmnet/man/glmnet.Rd | 15
glmnet-1.8-2/glmnet/src/newermultGLMnet.f90 |only
glmnet-1.8/glmnet/src/newmultGLMnet.f90 |only
14 files changed, 1532 insertions(+), 1341 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining with R
Diff between FactoMineR versions 1.19 dated 2012-06-27 and 1.20 dated 2012-10-02
Description: an R package for exploratory data analysis
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Maintainer: Francois Husson
DESCRIPTION | 8 +-
FactoMineR-Ex.R | 53 ++++++++++++++---
MD5 | 38 ++++++------
R/HCPC.R | 16 +----
R/MFA.R | 2
R/catdes.r | 4 -
R/plot.AFDM.R | 10 ++-
R/plot.HCPC.R | 5 -
R/plotellipses.r | 12 +--
data/children.rda |binary
data/datalist | 1
data/geomorphology.rda |only
data/poison.rda |binary
data/poison.text.rda |binary
inst/doc/FactoMineR.pdf |binary
inst/doc/clustering_and_pricipal_component_methods.pdf |binary
man/AFDM.Rd | 5 +
man/MCA.Rd | 2
man/geomorphology.Rd |only
man/plot.AFDM.Rd | 13 ++--
man/plot.HCPC.Rd | 2
21 files changed, 109 insertions(+), 62 deletions(-)
Title: A generalization of Fisher's exact test
Diff between aylmer versions 1.0-7 dated 2011-03-27 and 1.0-9 dated 2012-10-02
Description: A generalization of Fisher's exact test that allows for
structural zeros.
Author: Robin K. S. Hankin (R) and Luke J. West (C++)
Maintainer:
aylmer-1.0-7/aylmer/inst/doc/algorithm.pdf |only
aylmer-1.0-7/aylmer/inst/doc/fishergen.bib |only
aylmer-1.0-7/aylmer/inst/doc/metropolis.pdf |only
aylmer-1.0-9/aylmer/DESCRIPTION | 6 +++---
aylmer-1.0-9/aylmer/MD5 |only
aylmer-1.0-9/aylmer/R/aylmer.R | 2 +-
aylmer-1.0-9/aylmer/R/zzz.R | 6 +++---
aylmer-1.0-9/aylmer/data/frogs.rda |binary
aylmer-1.0-9/aylmer/data/glass.rda |binary
aylmer-1.0-9/aylmer/data/iqd.rda |binary
aylmer-1.0-9/aylmer/data/purum.rda |binary
aylmer-1.0-9/aylmer/inst/doc/fishervig.Rnw | 13 +++++--------
aylmer-1.0-9/aylmer/inst/doc/fishervig.pdf |binary
aylmer-1.0-9/aylmer/src/aylmer.cpp | 4 ++--
aylmer-1.0-9/aylmer/src/board.h | 13 ++++++++-----
aylmer-1.0-9/aylmer/vignettes |only
16 files changed, 22 insertions(+), 22 deletions(-)