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comparison readme.rst @ 3:7342f467507b draft

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Uploaded v0.4 of JBrowse
author iuc
date Thu, 31 Dec 2015 13:58:43 -0500
parents 497c6bb3b717
children ad4b9d7eae6a
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2:b6a0e126dbee 3:7342f467507b
4 JBrowse is a fast, embeddable genome browser built completely with 4 JBrowse is a fast, embeddable genome browser built completely with
5 JavaScript and HTML5 5 JavaScript and HTML5
6 6
7 Thus, it makes an ideal fit with Galaxy, especially for use as a 7 Thus, it makes an ideal fit with Galaxy, especially for use as a
8 workflow summary. E.g. annotate a genome, then visualise all of the 8 workflow summary. E.g. annotate a genome, then visualise all of the
9 associated datasets as an interactive HTML page. 9 associated datasets as an interactive HTML page. This tool MUST be whitelisted
10 (or ``sanitize_all_html=False``) to function correctly.
10 11
11 Installation 12 Installation
12 ============ 13 ============
13 14
14 It is recommended to install this wrapper via the Galaxy Tool Shed 15 It is recommended to install this wrapper via the Galaxy Tool Shed.
15 16
16 Running Locally 17 Running Locally
17 =============== 18 ===============
18 19
19 The Galaxy tool interface writes out a yaml file which is then used to generate 20 The Galaxy tool interface writes out a yaml file which is then used to generate
20 the visualizations. An example used during development/testing can be seen in 21 the visualizations. An example used during development/testing can be seen in
21 `test.yml`. The format is in no way rigorously defined and is likely to change 22 `test-data/*/test.xml`. The format is in no way rigorously defined and is
22 at any time. 23 likely to change at any time! Beware. ;)
23 24
24 History 25 History
25 ======= 26 =======
26 27
27 - 0.1 Initial public release 28 - 0.4 Support for dataset collections and customisation of tracks including
28 - 0.2 Added support for BAM, Blast, VCF 29 labelling, colours, styling. Added support for genetic code selection.
30 Fixed package installation recipe issues.
31 - 0.3 Added support for BigWig, etc.
32 - 0.2 Added support for BAM, Blast, VCF.
33 - 0.1 Initial public release.
29 34
30 Wrapper License (MIT/BSD Style) 35 Wrapper License (MIT/BSD Style)
31 =============================== 36 ===============================
32 37
33 Permission to use, copy, modify, and distribute this software and its 38 Permission to use, copy, modify, and distribute this software and its