annotate TopHit_namefilter/TopHit_README @ 0:9f1fe290345e default tip

Migrated tool version 0.1.Alx from old tool shed archive to new tool shed repository

# Created May 2011
#
# Alex Bossers
# Central Veterinary Institute
# Wageningen University and Research centre
# Lelystad, The Netherlands
#
# Comments/improvements/bugs: Alex (dot) Bossers (at) wur (dot) nl


# WHAT IT DOES
TopHit_namefilter is a SIMPLE filter to keep just the TOPHIT / first [N] occurrence(s) of some
identifier. This is  useful for keeping only the first N tophits of for instance BLAST when
multiple hits were returned (and you don't want to rerun the BLAST analysis). Of course it is NOT
restricted to BLAST and can basically filter ANY tabular data for uniqueness.

Please be aware that NO additional filtering or checking is done on for instance E values of BLAST hits.
Tophit = FIRST hit...not necessarily the best.. If multiple hits are selected to be returned
they will NOT be sorted (see below example of a number of 2 hits occurring somewhere else in the
input and therefore in the output file).


# REQUIREMENTS 
Perl
Galaxy :)


# SETUP 
Just unpack the tool xml and perl script somewhere appropriate and plug the tool in the tool_config.xml
of your galaxy instance. Refresh the tools or restart the galaxy server.


# LICENSE
Copyright (c) 2011 Central Veterinary Institute of Wageningen UR, Lelystad, The Netherlands.

This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation; either version 3 of the License, or
(at your option) any later version.

When distributing the tools please include this original reference.

Use this tool at your own risk. Even though we tried to build tools and wrappers that free of errors,
check your output since it might be erroneous. We will not be relyable to any failure this may have caused.

If you like these scripts, please acknowledge our work.