pbmergeΒΆ

Usage: pbmerge [options] [-o <out.bam>] <INPUT>

pbmerge merges PacBio BAM files. If the input is DataSetXML, any filters will be
applied. If no output filename is specified, new BAM will be written to stdout.

Options:
-h, --help            show this help message and exit
--version             show program's version number and exit

Input/Output:
  -o output           Output BAM filename.
  --no-pbi            Set this option to skip PBI index file creation. PBI
                      creation is automatically skipped if no output filename
                      is provided.
  INPUT               Input may be one of:
                          DataSetXML, list of BAM files, or FOFN

                          fofn: pbmerge -o merged.bam bams.fofn

                          bams: pbmerge -o merged.bam 1.bam 2.bam 3.bam

                          xml:  pbmerge -o merged.bam foo.subreadset.xml