Difference between revisions of "Bam2tdf"
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Instructions: | Instructions: | ||
| − | ~$ java -jar bam2tdf.jar <location of your bam file> | + | ~$ java -jar bam2tdf.jar [-m <minimumMappingQuality>] <location of your bam file> |
| + | |||
| + | |||
| + | bam2tdf calculates fragment coverage, not physical coverage | ||
Requirements: | Requirements: | ||
- Java 7+ | - Java 7+ | ||
- BAM file needs to be sorted and indexed | - BAM file needs to be sorted and indexed | ||
Latest revision as of 22:25, 25 November 2013
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