DS-v2.0.11

Bugfix in PE_BASH_MAKER.py.

Version 2.0 Release

This release is intended for use with the Nature Protocols paper describing Duplex Sequencing (Kennedy et al., 2014; doi:10.1038/nprot.2014.170). Although the step by step process described in the paper can be used, a template bash script and bash script writer are also provided.

The programs have been tested using bwa for sequence alignment and samtools for sequence sorting. In order to run the pipeline, a computer that can run samtools in necessary for pysam to function (either MacOS or a Linux/Unix distribution). Use of another aligner, while theoretically possible, has not been tested on this version.