Only use reads from the specified library
This filter is useful for running on only a subset of the data as identified by a read group property. In the case of the library filter, the goal is usually to run quality control checks on a particular library.
java -jar GenomeAnalysisTk.jar \ -T ToolName \ -R reference.fasta \ -I input.bam \ -o output.file \ -rf LibraryRead \ -library library_name
This table summarizes the command-line arguments that are specific to this tool. For more details on each argument, see the list further down below the table or click on an argument name to jump directly to that entry in the list.
|Argument name(s)||Default value||Summary|
||NA||The name of the library to keep, filtering out all others|
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.
The name of the library to keep, filtering out all others
R String NA
GATK version 3.6-0-g89b7209 built at 2017/02/09 12:52:48.