BlackOPs: RNA-Seq Variant Blacklist Tool

This page contains the necessary software to characterize mappability of RNA-Seq reads and create a "blacklist" of genomic positions of mismapped reads. This blacklist can be used to filter potential false positives from variant or RNA editing calls.

This software is described in "BlackOPs: Increasing Confidence in Variant Detection through Mappability Filtering" by CR Cabanski et al. Please cite this article if you use our software or available blacklists in your own analysis.