cm_to_wigeon - helper for wigeon (Pintail 16S DNA anomaly detection)

       This manual page was written by Andreas Tille <tille@debian.org> but can be freely  used  for  any  other
       distribution.

cm_to_wigeon                                        June 2013                                    CM_TO_WIGEON(1)

Unfortunatelythistoolsthatcomesinconnectionwithwigeon(1)isnotdocumentedbutitregardstheoptionsbelow.IfyouknowbetteraboutitspurposepleasedropusanoteusingreportbugonyourDebiansystem.

       cm_to_wigeon - helper for wigeon (Pintail 16S DNA anomaly detection)

Required:--query_NAST
              multi-fasta file containing query sequences in alignment format

       --db_NAST
              db in NAST format

       --db_FASTA
              db in fasta format (megablast formatted)

   Commonoptions-n     number of top matching database sequences to compare to (default 15)

       -R     min divergence ratio default: 1.007

       -P     min percent identity among matching sequences (default 90)

   ParameterstotuneChimeraMaligner:
       Scoring parameters:

       -M     match score   (default: +5)

       -N     mismatch penalty  (default: -4)

       -Q     min query coverage by matching database sequence (default: 70)

       -T     maximum traverses of the multiple alignment  (default: 1)

   Flags:--printAlignments
              (default off)

       -v     verbose

       --exec_dir
              cd here before running

http://microbiomeutil.sourceforge.net/