bionic (1) sambamba.1.gz

NAME

       sambamba - toolkit for working with SAM/BAM/CRAM files

SYNOPSIS

       sambamba [subcommand] [arguments...]

DESCRIPTION

       sambamba unifies several independent tools in one executable:

       •   sambamba-view(1)

       •   sambamba-index(1)

       •   sambamba-merge(1)

       •   sambamba-sort(1)

       •   sambamba-markdup(1)

       •   sambamba-flagstat(1)

       •   sambamba-slice(1)

       •   sambamba-pileup(1)

       Thus available subcommands are view, index, merge, sort, markdup, flagstat, slice, and mpileup. Their use
       is explained on the corresponding man pages.

       Note that sambamba uses all available cores by default.

                                                  February 2015                                      SAMBAMBA(1)