Mercurial > repos > iuc > jbrowse

JBrowse in Galaxy
=================

    JBrowse is a fast, embeddable genome browser built completely with
    JavaScript and HTML5

Thus, it makes an ideal fit with Galaxy, especially for use as a
workflow summary. E.g. annotate a genome, then visualise all of the
associated datasets as an interactive HTML page.

Installation
============

It is recommended to install this wrapper via the Galaxy Tool Shed

Running Locally
===============

The Galaxy tool interface writes out a yaml file which is then used to generate
the visualizations. An example used during development/testing can be seen in
`test.yml`. The format is in no way rigorously defined and is likely to change
at any time.

History
=======

-  0.1 Initial public release
-  0.2 Added support for BAM, Blast, VCF

Wrapper License (MIT/BSD Style)
===============================

Permission to use, copy, modify, and distribute this software and its
documentation with or without modifications and for any purpose and
without fee is hereby granted, provided that any copyright notices
appear in all copies and that both those copyright notices and this
permission notice appear in supporting documentation, and that the names
of the contributors or copyright holders not be used in advertising or
publicity pertaining to distribution of the software without specific
prior permission.

THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL
WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE
CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT OR
CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS OF
USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
PERFORMANCE OF THIS SOFTWARE.
author	iuc
date	Tue, 23 Jun 2015 12:10:15 -0400
parents	497c6bb3b717
children	7342f467507b