gmapR: An R interface to the GMAP/GSNAP/GSTRUCT suite

GSNAP and GMAP are a pair of tools to align short-read data written by Tom Wu. This package provides convenience methods to work with GMAP and GSNAP from within R. In addition, it provides methods to tally alignment results on a per-nucleotide basis using the bam_tally tool.

Getting started

Package details

AuthorCory Barr, Thomas Wu, Michael Lawrence
Bioconductor views Alignment
MaintainerMichael Lawrence <>
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


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gmapR documentation built on Nov. 8, 2020, 5:29 p.m.