NAME

       sga-astat - Compute Myers' a-statistic for a set of contigs using the read alignments in in.bam

SYNOPSIS

       sga-astat [options] <in.bam>

DESCRIPTION

       The  major  goal  of  SGA  is  to  be  very  memory  efficient,  which  is achieved by using a compressed
       representation of DNA sequence reads.

       SGA is a de novo assembler for DNA sequence reads. It is based on Gene Myers' string graph formulation of
       assembly  and  uses  the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence
       reads.

OPTIONS

       -m=INT only compute a-stat for contigs at least INT bases in length

       -b=INT use the longest INT contigs to perform the initial estimate of the arrival rate (default: 20)

       -n=INT perform INT bootstrap iterations of the estimate

       -g=INT use INT as the genome size instead of estimating it

       --no-duplicates
              do not use duplicate reads to calculate statistics

AUTHOR

       This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage
       of the program.