Using HTS data, clusters mutations in order to recreate putative clones from the data provided. It requires genotype at the location of the variant as well as the depth of coverage and number of reads supporting the mutation. Additional information may be provided, such as the contamination in the tumor sample. This package also provides a function QuantumCat() which simulates data obtained from tumor sequencing.
| Version: | 1.0.0.6 |
| Depends: | R (≥ 3.1.0), compiler, foreach |
| Imports: | doParallel, parallel, gridExtra, ggplot2, NbClust, DEoptim, optimx, fpc |
| Suggests: | knitr, rmarkdown, testthat |
| Published: | 2017-11-13 |
| Author: | Paul Deveau [aut, cre] |
| Maintainer: | Paul Deveau <quantumclone.package at gmail.com> |
| BugReports: | https://github.com/DeveauP/QuantumClone/issues |
| License: | GPL-2 |
| URL: | https://github.com/DeveauP/QuantumClone |
| NeedsCompilation: | no |
| CRAN checks: | QuantumClone results |
| Reference manual: | QuantumClone.pdf |
| Vignettes: |
Release Use case |
| Package source: | QuantumClone_1.0.0.6.tar.gz |
| Windows binaries: | r-devel: QuantumClone_1.0.0.6.zip, r-release: QuantumClone_1.0.0.6.zip, r-oldrel: QuantumClone_1.0.0.6.zip |
| macOS binaries: | r-release: QuantumClone_1.0.0.6.tgz, r-oldrel: QuantumClone_1.0.0.6.tgz |
| Old sources: | QuantumClone archive |
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