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Initial interproscan5 wrapper.
author bgruening
date Tue, 08 Oct 2013 09:18:17 -0400
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children e32f2ea6a139
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1 ================================================
2 Galaxy wrapper for InterProScan prediction tools
3 ================================================
4
5 InterProScan is a tool that combines different protein signature recognition methods native to the InterPro
6 member databases into one resource with look up of corresponding InterPro and GO annotation.
7
8 This wrapper is copyright 2013 by:
9 * Bjoern Gruening
10 * Konrad Paszkiewicz
11
12
13 This prepository contains wrapper for the InterProScan_ command line tool.
14
15 .. _InterProScan: http://www.ebi.ac.uk/interpro/interproscan.html
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17
18 Quevillon E., Silventoinen V., Pillai S., Harte N., Mulder N., Apweiler R., Lopez R. (2005). InterProScan: protein domains identifier. Nucleic Acids Res. 33 (Web Server issue): W116-W120
19
20
21 ============
22 Installation
23 ============
24
25 Please download install InterProScan according to:
26
27 https://code.google.com/p/interproscan/wiki/HowToDownload
28
29
30 ========
31 Citation
32 ========
33
34 If you use this Galaxy tool in work leading to a scientific
35 publication, in addition to citing the invididual underlying tools, please cite:
36
37 Peter Cock, Bjoern Gruening, Konrad Paszkiewicz and Leighton Pritchard (2013).
38 Galaxy tools and workflows for sequence analysis with applications
39 in molecular plant pathology. PeerJ 1:e167
40 http://dx.doi.org/10.7717/peerj.167
41
42 Full reference information is included in the help text.
43
44
45 =============
46 Input formats
47 =============
48
49 The standard interproscan input is either genomic or protein sequences.
50 In the case of genomic sequences Interproscan will run an ORF prediction tool.
51
52
53 =======
54 History
55 =======
56
57 interproscan:
58
59 - v5.0: Initial public release of version 5.0
60
61
62 ===============================
63 Wrapper Licence (MIT/BSD style)
64 ===============================
65
66 Permission to use, copy, modify, and distribute this software and its
67 documentation with or without modifications and for any purpose and
68 without fee is hereby granted, provided that any copyright notices
69 appear in all copies and that both those copyright notices and this
70 permission notice appear in supporting documentation, and that the
71 names of the contributors or copyright holders not be used in
72 advertising or publicity pertaining to distribution of the software
73 without specific prior permission.
74
75 THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL
76 WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED
77 WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE
78 CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT
79 OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
80 OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE
81 OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE
82 OR PERFORMANCE OF THIS SOFTWARE.
83