tobiasrausch/delly — pull request #4 by chapmanb (2014-04-22 00:54:04+00:00)
Title: Convert exclude file into full BED with start/end/name making it compatible with other tools

Tobias;
Thanks for all your work on Delly. We've been working on integrating it as part of bcbio-nextgen (https://github.com/chapmanb/bcbio-nextgen/blob/master/bcbio/structural/delly.py), and found the exclude file very helpful. This patch adds start/end/name fields to the extra chromosomes to make it compatible with other tools like lumpy that expect an input BED.