bam2bed_sge1
Manual page for bam2bed_sge 2.4.41+dfsg
Usage
bam2bed_sge [--help]
[--clean]
<input-indexed-bam-file>
[output-bed-file]
Overview
-
Pass in the name of an indexed BAM file to create a sorted BED file using the cluster.
-
(stdin isn't supported through this wrapper script.)
-
Add
--cleanto remove <input-indexed-bam-file> after turning it into BED.
-
You can pass in the name of the output bed archive to be created. Otherwise, the output will have the same name as the input file, with an additional
- '.bed' ending.
-
If the input file ends with '.bam', that will be stripped off.