SCM

R Development Page

Contributed R Packages

Below is a list of all packages provided by project HTSAnalysis.

Important note for package binaries: R-Forge provides these binaries only for the most recent version of R, but not for older versions. In order to successfully install the packages provided on R-Forge, you have to switch to the most recent version of R or, alternatively, install from the package sources (.tar.gz).

Packages

HTSCluster

Clustering High-Throughput Transcriptome Sequencing (HTS) Data

  A Poisson mixture model is implemented to cluster genes from high- throughput transcriptome sequencing (RNA-seq) data. Parameter estimation is performed using either the EM or CEM algorithm, and the slope heuristics are used for model selection (i.e., to choose the number of clusters).
  Version: 2.0.8 | Last change: 2016-05-26 17:45:35+02 | Rev.: 117
  Download: linux(.tar.gz) | windows(.zip) | Build status: Current | Stable Release: Get HTSCluster 2.0.8 from CRAN
  R install command: install.packages("HTSCluster", repos="http://R-Forge.R-project.org")
 
Logs:  
Package build: Source package (Linux x86_64) Windows binary (x86_64/i386)
Package check: Linux x86_64 (patched) | Linux x86_64 (devel) Windows (patched) | Windows (devel)


HTSDiff

Differential Analysis of RNA-Seq Data with Poisson Mixture Models

  A Poisson mixture model is implemented to identify differentially expressed genes from RNA-seq data.
  Version: 1.0.6 | Last change: 2015-01-18 23:05:02+01 | Rev.: 98
  Download: linux(.tar.gz) | windows(.zip) | Build status: Current
  R install command: install.packages("HTSDiff", repos="http://R-Forge.R-project.org")
 
Logs:  
Package build: Source package (Linux x86_64) Windows binary (x86_64/i386)
Package check: Linux x86_64 (patched) | Linux x86_64 (devel) Windows (patched) | Windows (devel)


metaRNASeq

Meta-analysis of RNA-seq data

  Implementation of two p-value combination techniques (inverse normal and Fisher methods). A vignette is provided to explain how to perform a meta-analysis from two independent RNA-seq experiments.
  Version: 1.0.2 | Last change: 2015-01-26 15:19:14+01 | Rev.: 103
  Download: linux(.tar.gz) | windows(.zip) | Build status: Current | Stable Release: Get metaRNASeq 1.0.2 from CRAN
  R install command: install.packages("metaRNASeq", repos="http://R-Forge.R-project.org")
 
Logs:  
Package build: Source package (Linux x86_64) Windows binary (x86_64/i386)
Package check: Linux x86_64 (patched) | Linux x86_64 (devel) Windows (patched) | Windows (devel)

 

Build status codes

0 - Current: the package is available for download. The corresponding package passed checks on the Linux and Windows platform without ERRORs.
1 - Scheduled for build: the package has been recognized by the build system and provided in the staging area.
2 - Building: the package has been sent to the build machines. It will be built and checked using the latest patched version of R. Note that it is included in a batch of several packages. Thus, this process will take some time to finish.
3 - Failed to build: the package failed to build or did not pass the checks on the Linux and/or Windows platform. It is not made available since it does not meet the policies.
4 - Conflicts: two or more packages of the same name exist. None of them will be built. Maintainers are asked to negotiate further actions.
5 - Offline: the package is not available. The build system may be offline or the package maintainer did not trigger a rebuild (done e.g., via committing to the package repository).

If your package is not shown on this page or not building, then check the build system status report.

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