MSIseq: Assess Tumor Microsatellite Instability with a Decision Tree Classifier from Exome Somatic Mutations

A decision tree classifier for detecting microsatellite instability (MSI) in somatic mutation data from whole exome sequencing. MSI is detected based on different mutation rates in all sites as well as in simple sequence repeats. This mechanism can also be applied to sequence data of targeted gene panels with shorter sequence length.

Version: 1.0.0
Depends: IRanges, RWeka, rJava, R.utils, R (≥ 3.2.0)
Published: 2015-06-15
Author: Mini Huang
Maintainer: Mini Huang <mini.huang at nus.edu.sg>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
SystemRequirements: Java
CRAN checks: MSIseq results

Downloads:

Reference manual: MSIseq.pdf
Package source: MSIseq_1.0.0.tar.gz
Windows binaries: r-devel: MSIseq_1.0.0.zip, r-release: MSIseq_1.0.0.zip, r-oldrel: MSIseq_1.0.0.zip
OS X El Capitan binaries: r-release: MSIseq_1.0.0.tgz
OS X Mavericks binaries: r-oldrel: MSIseq_1.0.0.tgz
Old sources: MSIseq archive

Linking:

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