Title: Univariate and Multivariate Spatial Modeling
Diff between spBayes versions 0.1-8 dated 2010-04-17 and 0.1-9 dated 2010-08-06
Description: spBayes fits univariate and multivariate models with
Markov chain Monte Carlo (MCMC).
Author: Andrew O. Finley
Maintainer: Andrew O. Finley
DESCRIPTION | 8 ++++----
inst/doc/spBayes-vignette.pdf |binary
man/spGGT.Rd | 5 ++++-
man/spPredict.Rd | 32 ++++++++++++++++----------------
src/spLMPredict.cpp | 2 +-
src/spMvLMPredict.cpp | 3 ++-
6 files changed, 27 insertions(+), 23 deletions(-)
Title: Interface to Lp_solve v. 5.5 to solve linear/integer programs
Diff between lpSolve versions 5.6.4 dated 2008-08-31 and 5.6.5 dated 2010-08-06
Description: Lp_solve is freely available (under LGPL 2) software for
solving linear, integer and mixed integer programs. In this
implementation we supply a "wrapper" function in C and some R
functions that solve general linear/integer problems,
assignment problems, and transportation problems. This version
calls lp_solve version 5.5.
Author: Michel Berkelaar and others
Maintainer: Sam Buttrey
DESCRIPTION | 29 ++++++++++++++++-------------
man/lp.Rd | 2 +-
src/lpslink56.c | 5 ++---
3 files changed, 19 insertions(+), 17 deletions(-)
Title: Network analysis and visualization
Diff between igraph versions 0.5.3 dated 2009-11-22 and 0.5.4 dated 2010-08-06
Description: Routines for simple graphs and network analysis. igraph
can handle large graphs very well and provides functions for
generating random and regular graphs, graph visualization,
centrality indices and much more.
Author: Gabor Csardi
Maintainer: Gabor Csardi
igraph-0.5.3/igraph/R/measure.dynamics.R |only
igraph-0.5.3/igraph/R/revolver.R |only
igraph-0.5.3/igraph/man/evolver.Rd |only
igraph-0.5.3/igraph/man/measure.dynamics.Rd |only
igraph-0.5.3/igraph/man/undocumented.Rd |only
igraph-0.5.4/igraph/DESCRIPTION | 7
igraph-0.5.4/igraph/NAMESPACE | 53
igraph-0.5.4/igraph/R/attributes.R | 2
igraph-0.5.4/igraph/R/auto.R | 31
igraph-0.5.4/igraph/R/cocitation.R | 4
igraph-0.5.4/igraph/R/community.R | 16
igraph-0.5.4/igraph/R/conversion.R | 2
igraph-0.5.4/igraph/R/flow.R | 20
igraph-0.5.4/igraph/R/games.R | 37
igraph-0.5.4/igraph/R/interface.R | 4
igraph-0.5.4/igraph/R/iterators.R | 60
igraph-0.5.4/igraph/R/plot.R | 13
igraph-0.5.4/igraph/R/plot.shapes.R | 4
igraph-0.5.4/igraph/R/structural.properties.R | 32
igraph-0.5.4/igraph/R/structure.generators.R | 4
igraph-0.5.4/igraph/R/structure.info.R | 4
igraph-0.5.4/igraph/R/tkplot.R | 14
igraph-0.5.4/igraph/configure | 2768 ++++++++++--------------
igraph-0.5.4/igraph/configure.win | 45
igraph-0.5.4/igraph/man/aaa-igraph-package.Rd | 11
igraph-0.5.4/igraph/man/graph.data.frame.Rd | 6
igraph-0.5.4/igraph/man/layout.star.Rd |only
igraph-0.5.4/igraph/man/spinglass.community.Rd | 5
igraph-0.5.4/igraph/man/walktrap.community.Rd | 10
igraph-0.5.4/igraph/src/Makevars | 4
igraph-0.5.4/igraph/src/Makevars.win | 2
igraph-0.5.4/igraph/src/bliss_bignum.hh | 8
igraph-0.5.4/igraph/src/centrality.c | 88
igraph-0.5.4/igraph/src/clustertool.cpp | 9
igraph-0.5.4/igraph/src/community.c | 17
igraph-0.5.4/igraph/src/components.c | 19
igraph-0.5.4/igraph/src/foreign-gml-lexer.c | 54
igraph-0.5.4/igraph/src/foreign-gml-parser.c | 6
igraph-0.5.4/igraph/src/foreign-gml-parser.h | 2
igraph-0.5.4/igraph/src/foreign-graphml.c | 111
igraph-0.5.4/igraph/src/foreign-lgl-lexer.c | 54
igraph-0.5.4/igraph/src/foreign-lgl-parser.c | 6
igraph-0.5.4/igraph/src/foreign-lgl-parser.h | 2
igraph-0.5.4/igraph/src/foreign-ncol-lexer.c | 54
igraph-0.5.4/igraph/src/foreign-ncol-parser.c | 6
igraph-0.5.4/igraph/src/foreign-ncol-parser.h | 2
igraph-0.5.4/igraph/src/foreign-pajek-lexer.c | 54
igraph-0.5.4/igraph/src/foreign-pajek-parser.c | 6
igraph-0.5.4/igraph/src/foreign-pajek-parser.h | 2
igraph-0.5.4/igraph/src/foreign.c | 10
igraph-0.5.4/igraph/src/games.c | 3
igraph-0.5.4/igraph/src/gengraph_header.h | 11
igraph-0.5.4/igraph/src/igraph.h | 5
igraph-0.5.4/igraph/src/iterators.c | 3
igraph-0.5.4/igraph/src/layout.c | 143 +
igraph-0.5.4/igraph/src/motifs.c | 128 -
igraph-0.5.4/igraph/src/pottsmodel_2.cpp | 23
igraph-0.5.4/igraph/src/pottsmodel_2.h | 3
igraph-0.5.4/igraph/src/rinterface.c | 77
igraph-0.5.4/igraph/src/spectral_properties.c | 81
igraph-0.5.4/igraph/src/structural_properties.c | 62
igraph-0.5.4/igraph/src/types.h | 2
62 files changed, 2069 insertions(+), 2140 deletions(-)
Title: Command line option parser.
Diff between optparse versions 0.8 dated 2009-11-03 and 0.9.0 dated 2010-08-06
Description: A command line parser inspired by Python's ``optparse``
libary to be used with Rscript to write "#!" shebang scripts
that accept short and long flag/options.
Author: Trevor Davis. Some documentation and unit tests ported from
Allen Day's ``getopt`` package. Based on the optparse Python
library by the Python Software Foundation.
Maintainer: Trevor Davis
optparse-0.8/optparse/R/getopt.R |only
optparse-0.9.0/optparse/DESCRIPTION | 18 +-
optparse-0.9.0/optparse/R/optparse.R | 122 +++++++++---------
optparse-0.9.0/optparse/inst/doc/display_file.Rscript |only
optparse-0.9.0/optparse/inst/doc/optparse.Rnw | 85 +++++++++---
optparse-0.9.0/optparse/inst/doc/optparse.pdf |binary
optparse-0.9.0/optparse/man/parse_args.Rd | 83 +++++++++++-
7 files changed, 216 insertions(+), 92 deletions(-)
Title: C++ classes to embed R in C++ applications
Diff between RInside versions 0.2.2 dated 2010-03-23 and 0.2.3 dated 2010-08-06
Description: C++ classes to embed R in C++ applications The RInside
packages makes it easier to have 'R inside' your C++
application by providing a few wrapper classes.
As R itself is embedded into your application, a shared library build
of R is required. This works on Linux, OS X and even on Windows
provided you use the same tools used to build R itself.
Several examples are provided below the examples/ directory of the
installed package, and Doxygen-generated documentation of the
C++ classes is included as well.
Author: Dirk Eddelbuettel and Romain Francois
Maintainer: Dirk Eddelbuettel and Romain Francois
RInside-0.2.2/RInside/inst/doc |only
RInside-0.2.2/RInside/inst/lib |only
RInside-0.2.2/RInside/src/Makefile |only
RInside-0.2.2/RInside/src/Makefile.win |only
RInside-0.2.2/RInside/src/MemBuf.h |only
RInside-0.2.2/RInside/src/RInside.h |only
RInside-0.2.2/RInside/src/setenv.c |only
RInside-0.2.3/RInside/DESCRIPTION | 13
RInside-0.2.3/RInside/R/RInsidePaths.R | 12
RInside-0.2.3/RInside/cleanup.win |only
RInside-0.2.3/RInside/configure |only
RInside-0.2.3/RInside/configure.win |only
RInside-0.2.3/RInside/inst/ChangeLog | 82 ++++-
RInside-0.2.3/RInside/inst/examples/mpi/Makefile | 5
RInside-0.2.3/RInside/inst/examples/standard/Makefile | 13
RInside-0.2.3/RInside/inst/examples/standard/Makefile.win | 2
RInside-0.2.3/RInside/inst/examples/standard/rinside_callbacks0.cpp |only
RInside-0.2.3/RInside/inst/examples/standard/rinside_module_sample0.cpp |only
RInside-0.2.3/RInside/inst/examples/standard/rinside_sample3.cpp | 20 -
RInside-0.2.3/RInside/inst/examples/standard/rinside_sample4.cpp | 36 --
RInside-0.2.3/RInside/inst/examples/standard/rinside_sample8.cpp | 4
RInside-0.2.3/RInside/inst/examples/standard/rinside_sample9.cpp |only
RInside-0.2.3/RInside/inst/include |only
RInside-0.2.3/RInside/libRInside.a |only
RInside-0.2.3/RInside/src/Makevars |only
RInside-0.2.3/RInside/src/Makevars.win |only
RInside-0.2.3/RInside/src/MemBuf.cpp | 8
RInside-0.2.3/RInside/src/RInside.cpp | 156 +++++++++-
RInside-0.2.3/RInside/src/RInsideAutoloads.h |only
RInside-0.2.3/RInside/src/RInsideEnvVars.h |only
RInside-0.2.3/RInside/src/setenv |only
31 files changed, 271 insertions(+), 80 deletions(-)
Title: Flux estimation with static chamber data
Diff between HMR versions 0.2.0 dated 2010-01-19 and 0.2.1 dated 2010-08-06
Description: Statistical analysis of static chamber concentration data
for trace gas flux estimation
Author: Asger R. Pedersen
Maintainer: Asger R. Pedersen
DESCRIPTION | 6 +++---
R/HMR.main.R | 41 +++++++++++++++++++++++------------------
man/HMR.Rd | 57 +++++++++++++++++++++++++++++++--------------------------
3 files changed, 57 insertions(+), 47 deletions(-)
Title: Flexible Mixture Modeling
Diff between flexmix versions 2.2-7 dated 2010-06-25 and 2.2-8 dated 2010-08-06
Description: FlexMix implements a general framework for finite mixtures
of regression models using the EM algorithm. FlexMix provides
the E-step and all data handling, while the M-step can be
supplied by the user to easily define new models. Existing
drivers implement mixtures of standard linear models,
generalized linear models and model-based clustering.
Author: Friedrich Leisch and Bettina Gruen
Maintainer: Bettina Gruen
DESCRIPTION | 8 ++++----
NAMESPACE | 1 +
NEWS | 13 ++++++++++++-
R/allGenerics.R | 4 ++--
R/flexmix.R | 26 ++++++++++++++++----------
R/plot-refit.R | 4 ++--
R/refit.R | 32 ++++++++++++++++++++------------
R/rflexmix.R | 8 ++++----
inst/NEWS | 13 ++++++++++++-
inst/doc/flexmix-intro.pdf |binary
inst/doc/mixture-regressions.pdf |binary
inst/doc/regression-examples.pdf |binary
12 files changed, 73 insertions(+), 36 deletions(-)
Title: Benchmark Experiments Toolbox
Diff between benchmark versions 0.3 dated 2010-06-19 and 0.3-1 dated 2010-08-06
Description: The benchmark package provides a toolbox for setup,
execution and analysis of benchmark experiments. Main focus is
the analysis of data accumulating during the execution -- one
primary objective is the statistical correct computation of the
candidate algorithms' order.
Author: Manuel J. A. Eugster
Maintainer: Manuel J. A. Eugster
benchmark-0.3-1/benchmark/DESCRIPTION | 21
benchmark-0.3-1/benchmark/NAMESPACE | 85 -
benchmark-0.3-1/benchmark/NEWS | 16
benchmark-0.3-1/benchmark/R/algperf-beplot0.R | 376 ++---
benchmark-0.3-1/benchmark/R/algperf-paircomp.R | 722 +++++------
benchmark-0.3-1/benchmark/R/algperf-preference.R | 240 +--
benchmark-0.3-1/benchmark/R/algperf-visualizations.R | 326 ++--
benchmark-0.3-1/benchmark/R/algperf.R | 78 -
benchmark-0.3-1/benchmark/R/as.warehouse.R | 102 +
benchmark-0.3-1/benchmark/R/benchmark.R | 519 +++----
benchmark-0.3-1/benchmark/R/datachar-visualizations.R | 188 +-
benchmark-0.3-1/benchmark/R/dataset.R | 326 ++--
benchmark-0.3-1/benchmark/R/testprocedure.R |only
benchmark-0.3-1/benchmark/R/testres-analysis.R | 42
benchmark-0.3-1/benchmark/R/testres-visualizations.R | 44
benchmark-0.3-1/benchmark/R/warehouse.R | 672 +++++-----
benchmark-0.3-1/benchmark/TODO |only
benchmark-0.3-1/benchmark/data |only
benchmark-0.3-1/benchmark/demo |only
benchmark-0.3-1/benchmark/inst/CITATION | 168 +-
benchmark-0.3-1/benchmark/inst/PUBLICATION |only
benchmark-0.3-1/benchmark/inst/doc/index.html | 24
benchmark-0.3-1/benchmark/man/DatasetCharacteristics.Rd | 56
benchmark-0.3-1/benchmark/man/Paircomp.Rd | 62
benchmark-0.3-1/benchmark/man/TestProcedure.Rd |only
benchmark-0.3-1/benchmark/man/algperf-paircomp.Rd | 66 -
benchmark-0.3-1/benchmark/man/algperf-visualization.Rd | 70 -
benchmark-0.3-1/benchmark/man/as.dataset.Rd | 40
benchmark-0.3-1/benchmark/man/as.warehouse.Rd | 42
benchmark-0.3-1/benchmark/man/benchmark-comptime.Rd | 42
benchmark-0.3-1/benchmark/man/benchmark-generics.Rd | 28
benchmark-0.3-1/benchmark/man/benchmark-sampling.Rd | 60
benchmark-0.3-1/benchmark/man/benchmark.Rd | 50
benchmark-0.3-1/benchmark/man/beplot0.Rd | 94 -
benchmark-0.3-1/benchmark/man/characterize.Rd | 42
benchmark-0.3-1/benchmark/man/datachar-visualization.Rd | 48
benchmark-0.3-1/benchmark/man/monks3raw.Rd |only
benchmark-0.3-1/benchmark/man/subset.AlgorithmPerformance.Rd | 30
benchmark-0.3-1/benchmark/man/testres-visualization.Rd | 22
benchmark-0.3-1/benchmark/man/warehouse.Rd | 94 -
benchmark-0.3/benchmark/R/test.R |only
benchmark-0.3/benchmark/man/Test.Rd |only
42 files changed, 2435 insertions(+), 2360 deletions(-)
Title: R interface to the UNU.RAN random variate generators
Diff between Runuran versions 0.14.0 dated 2010-05-01 and 0.15.0 dated 2010-08-06
Description: Interface to the UNU.RAN library for Universal Non-Uniform
RANdom variate generators. Thus it allows to build non-uniform
random number generators from quite arbitrary distributions. In
particular, it provides an algorithm for fast numerical
inversion for distribution with given density function. In
addition, the package contains densities, distribution
functions and quantiles from a couple of distributions.
Author: Josef Leydold and Wolfgang H\"ormann
Maintainer: Josef Leydold
Runuran-0.14.0/Runuran/src/unuran-src/distributions/d_geometric_gen.c |only
Runuran-0.14.0/Runuran/src/unuran-src/specfunct/besselK.c |only
Runuran-0.14.0/Runuran/src/unuran-src/unur_Rmath.h |only
Runuran-0.15.0/Runuran/DESCRIPTION | 15
Runuran-0.15.0/Runuran/NAMESPACE | 2
Runuran-0.15.0/Runuran/NEWS | 17
Runuran-0.15.0/Runuran/R/Runuran.R | 21
Runuran-0.15.0/Runuran/R/universal.R | 2
Runuran-0.15.0/Runuran/configure | 3893 +++-------
Runuran-0.15.0/Runuran/inst/doc/Runuran.pdf |binary
Runuran-0.15.0/Runuran/inst/doc/src/pitfalls.Rnw | 4
Runuran-0.15.0/Runuran/inst/doc/src/title.tex | 3
Runuran-0.15.0/Runuran/inst/doc/src/universal.Rnw | 25
Runuran-0.15.0/Runuran/inst/doc/src/version.tex | 2
Runuran-0.15.0/Runuran/man/Runuran-package.Rd | 10
Runuran-0.15.0/Runuran/man/Runuran.distributions.Rd | 13
Runuran-0.15.0/Runuran/man/pinv.new.Rd | 10
Runuran-0.15.0/Runuran/man/ud.Rd | 48
Runuran-0.15.0/Runuran/man/up.Rd |only
Runuran-0.15.0/Runuran/src/Makevars.in | 2
Runuran-0.15.0/Runuran/src/Runuran.c | 205
Runuran-0.15.0/Runuran/src/Runuran.h | 9
Runuran-0.15.0/Runuran/src/Runuran_distr.c | 15
Runuran-0.15.0/Runuran/src/config.h.in | 3
Runuran-0.15.0/Runuran/src/unuran-src/distr/cont.c | 95
Runuran-0.15.0/Runuran/src/unuran-src/distr/corder.c | 12
Runuran-0.15.0/Runuran/src/unuran-src/distr/cvec.c | 54
Runuran-0.15.0/Runuran/src/unuran-src/distr/cxtrans.c | 2
Runuran-0.15.0/Runuran/src/unuran-src/distr/discr.c | 53
Runuran-0.15.0/Runuran/src/unuran-src/distr/discr.h | 3
Runuran-0.15.0/Runuran/src/unuran-src/distr/distr_source.h | 3
Runuran-0.15.0/Runuran/src/unuran-src/distr/distr_struct.h | 5
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_F.c | 25
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_beta.c | 23
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_beta_gen.c | 14
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_chi.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_chi_gen.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_chisquare.c | 20
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_exponential_gen.c | 2
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_gamma.c | 23
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_gamma_gen.c | 8
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_ghyp.c | 14
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_gig2.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_gig_gen.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_hyperbolic.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_ig.c | 2
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_lognormal.c | 25
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_normal.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_normal_gen.c | 21
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_powerexponential.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_powerexponential_gen.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_slash_gen.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_student.c | 35
Runuran-0.15.0/Runuran/src/unuran-src/distributions/c_student_gen.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_binomial.c | 24
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_binomial_gen.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_geometric.c | 16
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_hypergeometric.c | 35
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_hypergeometric_gen.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_logarithmic_gen.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_negativebinomial.c | 35
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_poisson.c | 20
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_poisson_gen.c | 16
Runuran-0.15.0/Runuran/src/unuran-src/distributions/d_zipf_gen.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/unur_distributions_source.h | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/vc_multicauchy.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/distributions/vc_multistudent.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/methods/cstd.c | 52
Runuran-0.15.0/Runuran/src/unuran-src/methods/cstd.h | 1
Runuran-0.15.0/Runuran/src/unuran-src/methods/dgt.c | 7
Runuran-0.15.0/Runuran/src/unuran-src/methods/dgt.h | 3
Runuran-0.15.0/Runuran/src/unuran-src/methods/dstd.c | 192
Runuran-0.15.0/Runuran/src/unuran-src/methods/dstd.h | 2
Runuran-0.15.0/Runuran/src/unuran-src/methods/mixt.c | 4
Runuran-0.15.0/Runuran/src/unuran-src/methods/mvtdr_init.ch | 17
Runuran-0.15.0/Runuran/src/unuran-src/methods/norta.c | 6
Runuran-0.15.0/Runuran/src/unuran-src/methods/pinv.c | 2
Runuran-0.15.0/Runuran/src/unuran-src/methods/pinv.h | 2
Runuran-0.15.0/Runuran/src/unuran-src/methods/pinv_debug.ch | 4
Runuran-0.15.0/Runuran/src/unuran-src/methods/pinv_info.ch | 20
Runuran-0.15.0/Runuran/src/unuran-src/methods/pinv_init.ch | 16
Runuran-0.15.0/Runuran/src/unuran-src/methods/pinv_newset.ch | 12
Runuran-0.15.0/Runuran/src/unuran-src/methods/pinv_sample.ch | 22
Runuran-0.15.0/Runuran/src/unuran-src/methods/x_gen.c | 8
Runuran-0.15.0/Runuran/src/unuran-src/parser/stringparser_lists.ch | 6
Runuran-0.15.0/Runuran/src/unuran-src/specfunct/unur_specfunct_source.h | 48
Runuran-0.15.0/Runuran/src/unuran-src/tests/chi2test.c | 2
Runuran-0.15.0/Runuran/src/unuran-src/tests/inverror.c | 121
Runuran-0.15.0/Runuran/src/unuran-src/unur_typedefs.h | 9
Runuran-0.15.0/Runuran/src/unuran-src/unuran.h | 20
Runuran-0.15.0/Runuran/src/unuran-src/utils/lobatto.c | 41
Runuran-0.15.0/Runuran/src/unuran-src/utils/lobatto_source.h | 2
Runuran-0.15.0/Runuran/tests/test_unuran.R | 90
93 files changed, 2838 insertions(+), 2837 deletions(-)
Title: Viewing Binary Files
Diff between hexView versions 0.3-1 dated 2008-08-25 and 0.3-2 dated 2010-08-06
Description: Functions to view files in raw binary form like in a hex
editor. Additional functions to specify and read arbitrary
binary formats.
Author: Paul Murrell
Maintainer: Paul Murrell
ChangeLog | 16 ++++++++++++++++
DESCRIPTION | 11 +++++++----
R/rawFormat.R | 24 +++++++++++++++++-------
man/as.character.rawFormat.Rd | 7 ++++++-
man/markedBlock.Rd | 4 ++--
man/print.rawFormat.Rd | 7 ++++++-
6 files changed, 54 insertions(+), 15 deletions(-)
Title: gpseq: Using the generalized Poisson distribution to model
sequence read counts from high throughput sequencing
experiments
Diff between GPseq versions 0.1 dated 2010-07-25 and 0.2 dated 2010-08-06
Description: Some functions for modeling sequence read counts as a
generalized poisson model and to use this model for detecting
differentially expressed genes in different conditions and
differentially spliced exons.
Author: Sudeep Srivastava, Liang Chen
Maintainer: Sudeep Srivastava
DESCRIPTION | 6 +++---
R/genpseq.R | 4 ++--
R/wrapper1.R | 11 +++++++++--
man/calc_chisq_statistic.Rd | 2 +-
man/estimate_differential_expression.Rd | 2 +-
man/estimate_differential_splicing.Rd | 2 +-
man/estimate_exon_gene_expression.Rd | 4 +++-
man/generalized_poisson_likelihood.Rd | 5 +++--
man/likelihood_ratio_generalized_poisson_exon_gene.Rd | 2 +-
man/likelihood_ratio_poisson_exon_gene.Rd | 2 +-
man/likelihood_ratio_tissue_generalized_poisson.Rd | 2 +-
man/likelihood_ratio_tissue_poisson.Rd | 2 +-
man/perform_permutation_de.Rd | 2 +-
man/perform_permutation_ds.Rd | 2 +-
14 files changed, 29 insertions(+), 19 deletions(-)