Difference between revisions of "JBrowse"
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See [[JBrowseDev/Installation|Installing JBrowse on Mac OS X and Linux]] for step-by-step installation instructions. | See [[JBrowseDev/Installation|Installing JBrowse on Mac OS X and Linux]] for step-by-step installation instructions. | ||
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* From CPAN: | * From CPAN: | ||
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* [[JBrowseDev/Upcoming Future JBrowse features]] | * [[JBrowseDev/Upcoming Future JBrowse features]] | ||
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[http://github.com/jbrowse From GitHub]. | [http://github.com/jbrowse From GitHub]. | ||
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[[Image:JBrowseShot2.png|border]] | [[Image:JBrowseShot2.png|border]] | ||
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Demo screenshot from 2009/03/24, showing region of ''Drosophila melanogaster'' 2R. | Demo screenshot from 2009/03/24, showing region of ''Drosophila melanogaster'' 2R. | ||
| − | + | = JBrowse Development = | |
JBrowse is an open-source project. Contributions are encouraged and welcomed. There is a [[#Mailing Lists|developer mailing list]] and teleconferences on the 3rd Monday of the month at 2pm Pacific US time. Please contact [mailto:ihh@berkeley.edu Ian Holmes] if you want to participate in the call. | JBrowse is an open-source project. Contributions are encouraged and welcomed. There is a [[#Mailing Lists|developer mailing list]] and teleconferences on the 3rd Monday of the month at 2pm Pacific US time. Please contact [mailto:ihh@berkeley.edu Ian Holmes] if you want to participate in the call. | ||
| − | + | =Contact= | |
;Mailing lists: {{MailingListsFor|JBrowse}} | ;Mailing lists: {{MailingListsFor|JBrowse}} | ||
Revision as of 21:01, 26 October 2011
Status
- Mature release
- Active development
- Active support
Resources
JBrowse is a genome browser with an AJAX-based interface. JBrowse renders most tracks using client side JavaScript and JSON as its data transfer format. JBrowse is the official successor to GBrowse.
Contents
Demo
Installation
See Installing JBrowse on Mac OS X and Linux for step-by-step installation instructions.
Prerequisites
Usage Notes
- General Usage, including information about:
- The JBrowse user interface
- Creating sequence tracks (e.g. from FASTA files, or a Chado database)
- Creating feature tracks (e.g. from BED or GFF files, a Chado database, or the UCSC genome browser)
- Creating image tracks (e.g. from WIG files)
- Making features searchable by name
- Removing tracks
- Additional topics:
Presentations
- Talk at the April 21, 2010 UCSC genome browser group ("genecats") meeting.
- JBrowse: A next-generation genome browser - Presentation by Ian Holmes at the August 2009 GMOD Meeting. See the talk's summary for more.
- JBrowse - Presentation by Mitch Skinner at the January 2009 GMOD Meeting. See the talk's summary for more.
- Presentation by Ian Holmes at July 2008 GMOD Meeting. See the talk's summary for more.
See also
- JBrowse Home Page
- JBrowse Quick Tutorial - JBrowse administration.
- JBrowseDev/Upcoming Future JBrowse features
Downloads
Screenshots
Demo screenshot from 2009/03/24, showing region of Drosophila melanogaster 2R.
JBrowse Development
JBrowse is an open-source project. Contributions are encouraged and welcomed. There is a developer mailing list and teleconferences on the 3rd Monday of the month at 2pm Pacific US time. Please contact Ian Holmes if you want to participate in the call.
Contact
- Mailing lists
| Mailing List Link | Description | Archive(s) | |
|---|---|---|---|
| JBrowse | gmod-ajax | JBrowse help and general questions. | Nabble (2010/05+), Sourceforge |
| jbrowse-dev | JBrowse development discussions. | Nabble (2011/08+) |
- Original author
- Mitch Skinner
