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.


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install.packages("varitas")

0.0.1 by Adam Mills, a month ago


Browse source code at https://github.com/cran/varitas


Authors: Adam Mills [aut, cre] , Erle Holgersen [aut] , Ros Cutts [aut] , Syed Haider [aut]


Documentation:   PDF Manual  


GPL-2 license


Imports stringr, dplyr, yaml, openxlsx, VennDiagram, assertthat, magrittr, tools, utils, tidyr, doParallel, foreach

Suggests testthat, knitr, rmarkdown, futile.logger

System requirements: perl, bedtools (>=2.27.1), bwa


See at CRAN