GSP
Quick Navigator

Search Site

Unix VPS
A - Starter
B - Basic
C - Preferred
D - Commercial
MPS - Dedicated
Previous VPSs
* Sign Up! *

Support
Contact Us
Online Help
Handbooks
Domain Status
Man Pages

FAQ
Virtual Servers
Pricing
Billing
Technical

Network
Facilities
Connectivity
Topology Map

Miscellaneous
Server Agreement
Year 2038
Credits
 

USA Flag

 

 

Man Pages


Manual Reference Pages  -  BP_HMMER_TO_TABLE.PL (1)

.ds Aq ’

NAME

bp_hmmer_to_table - turn HMMER output into tabular format

CONTENTS

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
Search for    or go to Top of page |  Section 1 |  Main Index


perl v5.20.3 BP_HMMER_TO_TABLE (1) 2016-04-05

Powered by GSP Visit the GSP FreeBSD Man Page Interface.
Output converted with manServer 1.07.