The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.

DoubleExpSeq: Differential Exon Usage Test for RNA-Seq Data via Empirical Bayes Shrinkage of the Dispersion Parameter

Differential exon usage test for RNA-Seq data via an empirical Bayes shrinkage method for the dispersion parameter the utilizes inclusion-exclusion data to analyze the propensity to skip an exon across groups. The input data consists of two matrices where each row represents an exon and the columns represent the biological samples. The first matrix is the count of the number of reads expressing the exon for each sample. The second matrix is the count of the number of reads that either express the exon or explicitly skip the exon across the samples, a.k.a. the total count matrix. Dividing the two matrices yields proportions representing the propensity to express the exon versus skipping the exon for each sample.

Version: 1.1
Imports: numDeriv, datasets, grDevices, graphics, stats, utils
Published: 2015-09-04
DOI: 10.32614/CRAN.package.DoubleExpSeq
Author: Sean Ruddy
Maintainer: Sean Ruddy <s.ruddy at yahoo.com>
License: GPL-3
NeedsCompilation: no
CRAN checks: DoubleExpSeq results

Documentation:

Reference manual: DoubleExpSeq.pdf

Downloads:

Package source: DoubleExpSeq_1.1.tar.gz
Windows binaries: r-devel: DoubleExpSeq_1.1.zip, r-release: DoubleExpSeq_1.1.zip, r-oldrel: DoubleExpSeq_1.1.zip
macOS binaries: r-release (arm64): DoubleExpSeq_1.1.tgz, r-oldrel (arm64): DoubleExpSeq_1.1.tgz, r-release (x86_64): DoubleExpSeq_1.1.tgz, r-oldrel (x86_64): DoubleExpSeq_1.1.tgz
Old sources: DoubleExpSeq archive

Reverse dependencies:

Reverse suggests: SpliceWiz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=DoubleExpSeq to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.