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>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
SystemRequirements: Java
CRAN checks: MSIseq results


Reference manual: MSIseq.pdf
Package source: MSIseq_1.0.0.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
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


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