1BP_MRTRANS(1)         User Contributed Perl Documentation        BP_MRTRANS(1)
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NAME

6       bp_mrtrans - implement a transformer of alignments from protein to mrna
7       coordinates
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SYNOPSIS

10       Usage:
11         bp_mrtrans -i inputfile -o outputfile [-if input format] [-of output
12       format] [-s cDNA sequence database]  [-sf cDNA sequence format] [-h]
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DESCRIPTION

15       This script will convert a protein alignment back into a cDNA.  Loosely
16       based on Bill Pearson's mrtrans.
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18       The options are:
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20          -o filename          - the output filename [default STDOUT]
21          -of format           - output sequence format
22                                 (multiple sequence alignment)
23                                 [default phylip]
24          -i filename          - the input filename [required]
25          -if format           - input sequence format
26                                 (multiple sequence alignment)
27                                 [ default clustalw]
28          -s --seqdb filename  - the cDNA sequence database file
29          -sf --seqformat      - the cDNA seq db format (flatfile sequence format)
30          -h                   - this help menu
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AUTHOR

33       Jason Stajich, jason-at-bioperl-dot-org
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37perl v5.8.8                       2007-05-07                     BP_MRTRANS(1)