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

6       hmmer_to_table  - turn HMMER output into tabular format
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SYNOPSIS

9        hmmer_to_table [-e evaluefilter] [-b bitscorefilter] [--header] [-o outfile] inputfile1 inputfile2 ...
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DESCRIPTION

12       Comand line options:
13         -e/--evalue   evalue    -- filter by evalue
14         -b/--bitscore bitscore  -- filter by bitscore
15         --header                -- boolean flag to print column header
16         -o/--out                -- optional outputfile to write data,
17                                    otherwise will write to STDOUT
18         -h/--help               -- show this documentation
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20       Not technically a SearchIO script as this doesn't use any Bioperl
21       components but is a useful and fast.  The output is tabular output.
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23         query sequence/domain (these are flip-flopped for hmmsearch / hmmpfam)
24         query start
25         query end
26         domain/sequence name or PFAM accession
27         hit start
28         hit end
29         score
30         e-value
31         domain/sequence name (these are flip-flopped for hmmsearch / hmmpfam)
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AUTHOR - Jason Stajich

34       Jason Stajich jason_at_bioperl-dot-org
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38perl v5.12.0                      2010-04-29              BP_HMMER_TO_TABLE(1)