Mercurial > repos > abossers > tophit_namefilter
comparison TopHit_namefilter/TopHit_README @ 0:9f1fe290345e default tip
Migrated tool version 0.1.Alx from old tool shed archive to new tool shed repository
author | abossers |
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date | Tue, 07 Jun 2011 18:07:34 -0400 |
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1 # Created May 2011 | |
2 # | |
3 # Alex Bossers | |
4 # Central Veterinary Institute | |
5 # Wageningen University and Research centre | |
6 # Lelystad, The Netherlands | |
7 # | |
8 # Comments/improvements/bugs: Alex (dot) Bossers (at) wur (dot) nl | |
9 | |
10 | |
11 # WHAT IT DOES | |
12 TopHit_namefilter is a SIMPLE filter to keep just the TOPHIT / first [N] occurrence(s) of some | |
13 identifier. This is useful for keeping only the first N tophits of for instance BLAST when | |
14 multiple hits were returned (and you don't want to rerun the BLAST analysis). Of course it is NOT | |
15 restricted to BLAST and can basically filter ANY tabular data for uniqueness. | |
16 | |
17 Please be aware that NO additional filtering or checking is done on for instance E values of BLAST hits. | |
18 Tophit = FIRST hit...not necessarily the best.. If multiple hits are selected to be returned | |
19 they will NOT be sorted (see below example of a number of 2 hits occurring somewhere else in the | |
20 input and therefore in the output file). | |
21 | |
22 | |
23 # REQUIREMENTS | |
24 Perl | |
25 Galaxy :) | |
26 | |
27 | |
28 # SETUP | |
29 Just unpack the tool xml and perl script somewhere appropriate and plug the tool in the tool_config.xml | |
30 of your galaxy instance. Refresh the tools or restart the galaxy server. | |
31 | |
32 | |
33 # LICENSE | |
34 Copyright (c) 2011 Central Veterinary Institute of Wageningen UR, Lelystad, The Netherlands. | |
35 | |
36 This program is free software; you can redistribute it and/or modify | |
37 it under the terms of the GNU General Public License as published by | |
38 the Free Software Foundation; either version 3 of the License, or | |
39 (at your option) any later version. | |
40 | |
41 When distributing the tools please include this original reference. | |
42 | |
43 Use this tool at your own risk. Even though we tried to build tools and wrappers that free of errors, | |
44 check your output since it might be erroneous. We will not be relyable to any failure this may have caused. | |
45 | |
46 If you like these scripts, please acknowledge our work. | |
47 |