Mercurial > repos > si-datascience > genome_tools
comparison interproscan5-e32f2ea6a139/readme.rst @ 2:5a720d9e7071 draft default tip
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author | si-datascience |
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date | Thu, 24 May 2018 14:39:59 -0400 |
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1 ================================================== | |
2 Galaxy wrapper for InterProScan 5 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 a wrapper for the InterProScan_ command line tool. | |
14 | |
15 .. _InterProScan: http://www.ebi.ac.uk/interpro/interproscan.html | |
16 | |
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 Licence (MIT) | |
64 ============= | |
65 | |
66 Permission is hereby granted, free of charge, to any person obtaining a copy | |
67 of this software and associated documentation files (the "Software"), to deal | |
68 in the Software without restriction, including without limitation the rights | |
69 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell | |
70 copies of the Software, and to permit persons to whom the Software is | |
71 furnished to do so, subject to the following conditions: | |
72 | |
73 The above copyright notice and this permission notice shall be included in | |
74 all copies or substantial portions of the Software. | |
75 | |
76 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR | |
77 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, | |
78 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE | |
79 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER | |
80 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, | |
81 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN | |
82 THE SOFTWARE. | |
83 |