comparison README.txt @ 6:769e306b7933

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author yufei-luo
date Fri, 18 Jan 2013 04:54:14 -0500
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1 ----------
2 | NAME |
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4 S-MART
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6
7 Description
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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.
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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.
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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.
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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/s_mart/)
24 3). Run .bashrc using . .bashrc command.
25
26 Supplementary Softwares :
27 * R, under the GNU General Public License
28 * Python, under the Python License, compatible with the GNU General Public License
29 Installation instructions and the user guide are available in the file
30 "documentation.pdf".
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32
33 Copyright
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35 Copyright INRA-URGI 2009-2013
36
37
38 Authors
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40 Matthias Zytnicki
41 Yufei Luo
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43 Contact
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45 urgi-support@versailles.inra.fr
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47
48 License
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50 This library is distributed under the terms of the CeCILL license
51 (http://www.cecill.info/index.en.html).
52 See the LICENSE.txt file.
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54
55 Acknowledgements
56 ----------------
57 Yufei Luo was supported by the Plant Breeding and Genetics research division of
58 the INRA, and by the Groupement d'intérêt scientifique IBISA.