Hi Lance, FWIW, there is an existing bedstrict and bed12 (and bed6) datatypes in Galaxy. The strict datatypes are currently usually created by implicit datatype converters and are most often used by some external display applications that need standards conforming files. bed6/12 are subclasses of bedstrict. They can of course be consumed or created by any sort of tool. Please let us know if we can provide additional information. Thanks for using Galaxy, Dan On Jan 14, 2016, at 4:26 PM, Lance Parsons <lparsons@princeton.edu> wrote:
Does anyone know of any efforts to create a BED12 datatype for Galaxy? Since some tools require BED12 and the automatic convertion from GFF-to-BED does not seem to generate a BED12, it seems it might be a worthwhile addition.
If not, what would be the best way to go about doing this? Making it part of the core galaxy (which would allow multiple tools to share the same data type definitions) or making it part of a toolshed tool (which I'm not sure how to do)? BTW, I'm thinking about RSeQC at the moment, but I know other tools use/require this format.
-- Lance Parsons - Scientific Programmer Carl C. Icahn Laboratory - Room 141 (Temporary) Lewis-Sigler Institute for Integrative Genomics Princeton University
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