Bam2tdf
Revision as of 22:25, 25 November 2013 by 69.173.108.246 (talk)
BAM2TDF is a command-line tool that converts BAM files to TDF (coverage) files.
You can download the latest version from the GenomeView nightly builds:
http://genomeview.org/jenkins/bam2tdf-nightly/
Instructions:
~$ java -jar bam2tdf.jar [-m <minimumMappingQuality>] <location of your bam file>
bam2tdf calculates fragment coverage, not physical coverage
Requirements:
- Java 7+ - BAM file needs to be sorted and indexed