BP_MRTRANS

NAME

bp_mrtrans − implement a transformer of alignments from protein to mrna coordinates

SYNOPSIS

Usage:
bp_mrtrans −i inputfile −o outputfile [−if input format] [−of output format] [−s cDNA sequence database] [−sf cDNA sequence format] [−h]

DESCRIPTION

This script will convert a protein alignment back into a cDNA. Loosely based on Bill Pearson’s mrtrans.

The options are:

   −o filename          − the output filename [default STDOUT]
   −of format           − output sequence format
                          (multiple sequence alignment)
                          [default phylip]
   −i filename          − the input filename [required]
   −if format           − input sequence format
                          (multiple sequence alignment)
                          [ default clustalw]
   −s −−seqdb filename  − the cDNA sequence database file
   −sf −−seqformat      − the cDNA seq db format (flatfile sequence format)
   −h                   − this help menu

AUTHOR

Jason Stajich, jason-at-bioperl-dot-org