varitas: Variant Calling in Targeted Analysis Sequencing Data

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
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

Documentation:

Reference manual: varitas.pdf
Vignettes: Errors
Introduction

Downloads:

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-release (x86_64): varitas_0.0.2.tgz, r-oldrel: varitas_0.0.2.tgz
Old sources: varitas archive

Linking:

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