Software

BEDTools

Citation: Quinlan, AR and Hall, IM, 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics. 26,6,pp. 841-842

Hydra

Citation: Quinlan AR, Clark RA, Sokolova S, Leibowitz ML, Zhang Y, Hurles ME, Mell JC, Hall IM. Genome Res. 2010 May; 20(5): 623-35. Epub 2010 Mar 22.

YAHA

Citation: Faust GG and Hall IM. YAHA: fast and flexible long-read alignment with optimal breakpoint detection. Bioinformatics (2012) 28(19): 2417-2424. Epub 2012 Jul 24. doi:10.1093/bioinformatics.