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bp_hmmer_to_tablep - Online in the Cloud

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This is the command bp_hmmer_to_tablep that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

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

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