Description

Splits a SAM/BAM/CRAM file to multiple files. This tool splits the input query-grouped SAM/BAM/CRAM file into multiple files while maintaining the sort order. This can be used to split a large unmapped input in order to parallelize alignment.

Input

Name
Description
Pattern

0 ()

1 ()

0 ()

1 ()

2 ()

split_to_N_reads (integer)

Split to have approximately N reads per output file, e.g. 4000000. The actual number of reads per output file will vary by no more than the number of output files * (the maximum number of reads with the same queryname - 1). Incompatible with split_to_N_files

split_to_N_files (integer)

Split to N files, e.g. 3. Incompatible with split_to_N_files

arguments_file (file)

optional Picard arguments file

*.{txt,list,args,arguments}

Output

Name
Description
Pattern

0 ()

0 ()

Tools

picard Documentation

Splits a SAM or BAM file to multiple BAMs by number of reads.

https://github.com/broadinstitute/picardLicense: MIT
Authors