divide_bam.py¶

Equally divide a BAM file into n parts. Each part contains roughly m/n alignments randomly sampled from the total.

Usage¶

divide_bam.py -i input.bam -n 4 -o output_prefix

Option	Description	Default
`-i`, `--input-file`	Alignment file in BAM format (sorted, indexed)	Required
`-n`, `--subset-num`	Number of output BAM files	Required
`-o`, `--out-prefix`	Prefix of output BAM files (produces `prefix_1.bam`, etc.)	Required
`-s`, `--skip-unmap`	Skip unmapped reads	Off

Produces n BAM files named prefix_1.bam, prefix_2.bam, ..., prefix_n.bam.