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comparison smart_toolShed/README.txt @ 3:4eaf0e192d11

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author yufei-luo
date Thu, 17 Jan 2013 11:04:12 -0500
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1 ----------
2 | NAME |
3 ----------
4 S-MART
5
6
7 Description
8 -----------
9 Several tools are now available for mapping high-throughput sequencing data from a genome, but few can extract biological knowledge from the mapped reads. We have developed a toolbox, S-MART, which handles mapped RNA-Seq and ChIP-Seq data.
10
11 S-MART is an intuitive and lightweight tool, performing several tasks that are usually required during the analysis of mapped RNA-Seq and ChIP-Seq reads, including data selection and data visualization.
12
13 S-MART does not require a computer science background and thus can be used by all biologists through a graphical interface. S-MART can run on any personal computer, yielding results within an hour for most queries.
14
15
16 Instructions
17 ------------
18 Environment Installation :
19 1). Put the downloaded S-MART directories into your Galaxy tools directory.
20 2). Open .bashrc (if it dosen't exist, create one).
21 Write or add the S-MART directory path to PYTHONPATH :
22 export PYTHONPATH=S-MART_PATH:/usr/lib/python2.7/
23 (ex. export PYTHONPATH=/home/user/galaxy-dist/tools/smart_toolShed/)
24 3). Run .bashrc using . .bashrc command.
25
26 Supplementary Softwares :
27 Installation instructions and the user guide are available in the file
28 "documentation.pdf".
29
30
31 Copyright
32 ---------
33 Copyright INRA-URGI 2009-2013
34
35
36 Authors
37 -------
38 Matthias Zytnicki
39
40
41 Contact
42 -------
43 urgi-support@versailles.inra.fr
44
45
46 License
47 -------
48 This library is distributed under the terms of the CeCILL license
49 (http://www.cecill.info/index.en.html).
50 See the LICENSE.txt file.
51
52
53 Acknowledgements
54 ----------------
55 This product needs the following softwares :
56 * R, under the GNU General Public License
57 * MySQL, under the GNU General Public License
58 * Python, under the Python License, compatible with the GNU General Public License
59 * MySQL for Python, under the GNU General Public License
60 * Java, under the GNU General Public License
61