hmmer_to_table [-e evaluefilter] [-b bitscorefilter] [--header] [-o outfile] inputfile1 inputfile2 ...
DESCRIPTIONCommand 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 StajichJason Stajich jason_at_bioperl-dot-org