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

NAME
       bp_hmmer_to_table  - turn HMMER output into tabular format

SYNOPSIS
	bp_hmmer_to_table [-e evaluefilter] [-b bitscorefilter] [--header] [-o outfile] inputfile1 inputfile2 ...

DESCRIPTION
       Command line options:
	 -e/--evalue   evalue	 -- filter by evalue
	 -b/--bitscore bitscore	 -- filter by bitscore
	 --header		 -- boolean flag to print column header
	 -o/--out		 -- optional outputfile to write data,
				    otherwise will write to STDOUT
	 -h/--help		 -- show this documentation

       Not technically a SearchIO script as this doesn't use any Bioperl
       components but is a useful and fast.  The output is tabular output.

	 query sequence/domain (these are flip-flopped for hmmsearch / hmmpfam)
	 query start
	 query end
	 domain/sequence name or PFAM accession
	 hit start
	 hit end
	 score
	 e-value
	 domain/sequence name (these are flip-flopped for hmmsearch / hmmpfam)

AUTHOR - Jason Stajich
       Jason Stajich jason_at_bioperl-dot-org

perl v5.20.2			  2015-09-15		  BP_HMMER_TO_TABLE(1)

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