Provided by: blasr_0~20151014+git8e668be-1_amd64 
NAME
samtom4 - Convert a SAM file generated by blasr(1) to M4 format
SYNOPSIS
samtom4 in.sam reference.fasta out.m4 [options]
OPTIONS
in.sam Input SAM file, which is produced by blasr.
reference.fasta
Reference used to generate file.sam.
out.m4 Output in blasr(1) M4 format.
-header
Print M4 header.
-useShortRefName
Use abbreviated reference names obtained from file.sam instead of using full names from
reference.fasta.
SEE ALSO
blasr(1) loadPulses(1) pls2fasta(1) samFilter(1) samtoh5(1) sawriter(1) sdpMatcher(1) toAfg(1)