Mercurial > repos > iuc > macs2
comparison readme.rst @ 0:fe62ba547975 draft
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author | iuc |
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date | Wed, 11 Feb 2015 10:18:02 -0500 |
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1 ======================== | |
2 Galaxy wrapper for MACS2 | |
3 ======================== | |
4 | |
5 With the improvement of sequencing techniques, chromatin immunoprecipitation | |
6 followed by high throughput sequencing (ChIP-Seq) is getting popular to study | |
7 genome-wide protein-DNA interactions. To address the lack of powerful ChIP-Seq | |
8 analysis method, we present a novel algorithm, named Model-based Analysis of | |
9 ChIP-Seq (MACS), for identifying transcript factor binding sites. MACS captures | |
10 the influence of genome complexity to evaluate the significance of enriched ChIP | |
11 regions, and MACS improves the spatial resolution of binding sites through | |
12 combining the information of both sequencing tag position and orientation. | |
13 MACS can be easily used for ChIP-Seq data alone, or with control sample with the increase of specificity. | |
14 | |
15 | |
16 ============ | |
17 Installation | |
18 ============ | |
19 | |
20 It is recommended to install this wrapper via the `Galaxy Tool Shed`. | |
21 | |
22 .. _`Galaxy Tool Shed`: http://toolshed.g2.bx.psu.edu/view/modencode-dcc/macs2 | |
23 | |
24 | |
25 ======= | |
26 History | |
27 ======= | |
28 - v2.0.10.1: Initial public release | |
29 - v2.0.10.3: add "broad peaks" options | |
30 | |
31 | |
32 ==================== | |
33 Detailed description | |
34 ==================== | |
35 | |
36 View the original MACS2 documentation: https://github.com/taoliu/MACS/blob/master/README.rst | |
37 | |
38 | |
39 =============================== | |
40 Wrapper Licence (MIT/BSD style) | |
41 =============================== | |
42 | |
43 Permission to use, copy, modify, and distribute this software and its | |
44 documentation with or without modifications and for any purpose and | |
45 without fee is hereby granted, provided that any copyright notices | |
46 appear in all copies and that both those copyright notices and this | |
47 permission notice appear in supporting documentation, and that the | |
48 names of the contributors or copyright holders not be used in | |
49 advertising or publicity pertaining to distribution of the software | |
50 without specific prior permission. | |
51 | |
52 THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL | |
53 WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED | |
54 WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE | |
55 CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT | |
56 OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS | |
57 OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE | |
58 OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE | |
59 OR PERFORMANCE OF THIS SOFTWARE. | |
60 |