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 |
| Reference manual: | MSIseq.pdf |
| Package source: | MSIseq_1.0.0.tar.gz |
| Windows binaries: | r-devel: MSIseq_1.0.0.zip, r-devel-gcc8: MSIseq_1.0.0.zip, r-release: MSIseq_1.0.0.zip, r-oldrel: MSIseq_1.0.0.zip |
| OS X binaries: | r-release: MSIseq_1.0.0.tgz, r-oldrel: MSIseq_1.0.0.tgz |
| Old sources: | MSIseq archive |
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