Calculates the GC content of the reference sequence for each interval
java -jar GenomeAnalysisTK.jar -T GCContentByInterval -R reference.fasta -o output.txt -L input.intervals
| Argument name(s) | Default value | Summary | |
|---|---|---|---|
| Optional Outputs | |||
| --out  -o | stdout | An output file created by the walker. Will overwrite contents if file exists | |