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Multi-caller variant analysis pipeline for targeted analysis sequencing (TAS) data. Features a modular, automated workflow that can start with raw reads and produces a user-friendly PDF summary and a spreadsheet containing consensus variant information.
| Version: | 0.0.2 |
| Imports: | stringr, dplyr, yaml, openxlsx, VennDiagram, assertthat, magrittr, tools, utils, tidyr, doParallel, foreach |
| Suggests: | testthat, knitr, rmarkdown, futile.logger |
| Published: | 2020-11-14 |
| DOI: | 10.32614/CRAN.package.varitas |
| Author: | Adam Mills [aut, cre], Erle Holgersen [aut], Ros Cutts [aut], Syed Haider [aut] |
| Maintainer: | Adam Mills <Adam.Mills at icr.ac.uk> |
| License: | GPL-2 |
| NeedsCompilation: | no |
| SystemRequirements: | perl, bedtools (>=2.27.1), bwa |
| Materials: | NEWS |
| CRAN checks: | varitas results |
| Reference manual: | varitas.pdf |
| Vignettes: |
Errors Introduction |
| Package source: | varitas_0.0.2.tar.gz |
| Windows binaries: | r-devel: varitas_0.0.2.zip, r-release: varitas_0.0.2.zip, r-oldrel: varitas_0.0.2.zip |
| macOS binaries: | r-release (arm64): varitas_0.0.2.tgz, r-oldrel (arm64): varitas_0.0.2.tgz, r-release (x86_64): varitas_0.0.2.tgz, r-oldrel (x86_64): varitas_0.0.2.tgz |
| Old sources: | varitas archive |
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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.