Mercurial > repos > fubar > jbrowse2

comparison readme.rst @ 54:d6b0feb22584 draft

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planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 53aab6394c715dc2d7fdd9188d6c9834e0516b5c
author fubar
date Thu, 14 Mar 2024 00:59:36 +0000
parents f350467f9433
children e7a6f7a7148d
comparison
equal deleted inserted replaced
53:bdfa6a7c4543 54:d6b0feb22584
1 JBrowse2 in Galaxy 1 JBrowse2 in Galaxy
2 ================== 2 ==================
3 Added Mar 8:
4 - URI as data source for tracks
5 - Autogenerate from a collection now builtin to advanced options - ignores form
6 - potentially thousands of tracks without filling in any form...
7 - Cram now working
8 - Multigenome pafs from mashmap working properly..
9 - TODO reuse code for references for paf references to allow URI and builtin genomes
3 10
4 Added Mar 3: 11 Added Mar 3:
5 - optional tracks at last for JB2 12 - optional tracks at last for JB2
6 - dotted noodles from optional inputs now ignored without harm 13 - dotted noodles from optional inputs now ignored without harm
7 - autogenJB2. 14 - autogenJB2.
22 .. image:: jbrowse8.png 29 .. image:: jbrowse8.png
23 30
24 JBrowse2 is a fast, embeddable genome browser built completely with 31 JBrowse2 is a fast, embeddable genome browser built completely with
25 JavaScript and HTML5 32 JavaScript and HTML5
26 33
27 Thus, it makes an ideal fit with Galaxy, especially for use as a 34 Makes an ideal fit with Galaxy, especially for use as a
28 workflow summary. E.g. annotate a genome, then visualise all of the 35 workflow summary. E.g. annotate a genome, then visualise all of the
29 associated datasets as an interactive HTML page. This tool MUST be whitelisted 36 associated datasets as an interactive HTML page. This tool MUST be whitelisted
30 (or ``sanitize_all_html=False`` in galaxy.ini) to function correctly. 37 (or ``sanitize_all_html=False`` in galaxy.ini) to function correctly.
31 The built-in Galaxy gunicorn server does not support byte range requests, so this tool must be proxied by nginx 38 The built-in Galaxy gunicorn server does not support byte range requests, so this tool must be proxied by nginx
32 or another web server, correctly configured to support range requests. A tiny web server is bundled 39 or another web server, correctly configured to support range requests. A tiny web server is bundled