Divides the input data set into separate BAM files, one for each sample in the input data set.
This Read Filter is automatically applied to the data by the Engine before processing by SplitSamFile.
This tool does not apply any downsampling by default.
The arguments described in the entries below can be supplied to this tool to modify its behavior. For example, the -L argument directs the GATK engine restricts processing to specific genomic intervals (this is an Engine capability and is therefore available to all GATK walkers).
This table summarizes the command-line arguments that are specific to this tool. For details, see the list further down below the table.
|--bam_compression||Integer||5||Compression level to use for writing BAM files|
|--outputRoot||String||NA||output BAM file|
Arguments in this list are specific to this tool. Keep in mind that other arguments are available that are shared with other tools (e.g. command-line GATK arguments); see Inherited arguments above.
Compression level to use for writing BAM files.
output BAM file.
GATK version 2.8-1-g2a26ec9 built at 2013/12/06 16:54:02.