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