NAME

       subindel - detect short and long indels

USAGE

       subindel  -i  <SAM  file>  -g  <subread index> -o <output VCF> {-d <expected fragment distance>} {-I <max
       indel length>} {--paired-end}

   Example:
              subindel -i my_paired_end_reads.SAM -g my_index -o my_result -d 300 -I 200 --paired-end

       SubIndel: detect short and long indels

   Usage:
              subindel -i <SAM file> -g <subread index> -o <output VCF> {-d <expected  fragment  distance>}  {-I
              <max indel length>} {--paired-end}

   Example:
              subindel -i my_paired_end_reads.SAM -g my_index -o my_result -d 300 -I 200 --paired-end

subindel 1.6.0+dfsg                               November 2017                                      SUBINDEL(1)