view README @ 18:2948554ae3d7 draft default tip

added nmeme option
author kevyin
date Thu, 22 Nov 2012 20:27:29 -0500
parents
children
line wrap: on
line source

Meme-chip wrapper for Galaxy

=========================================:
========Installation instructions========:
=========================================:
The tool_dependencies.xml can attempt to install meme in a folder specific for this tool.
(such as bwa_wrappers)

The procedure does NOT download motif databases you will need to download them yourself

Meme-chip assumes the meme tools are in PATH.
Make sure meme is accessible


========Tool data table conf========
Check the meme_chip_motifs entry is in tool_data_table_conf.xml

========Tool loc file========

Example in tool-data/meme_chip_motifs.loc.sample
Entries come from the motif_db.csv in the motif database folder

make sure:
- 3 cols
- tab delimited
- paths are correct

There is a script to convert the csv to the loc format here:
https://bitbucket.org/gvl/meme-chip/src
After running delete the loc entries with multiple paths eg. All Vertebrates


=========================================:
LICENSE for this wrapper: 
=========================================:
Kevin Ying
Garvan Institute: http://www.garvan.org.au
GVL: https://genome.edu.au/wiki/GVL

http://opensource.org/licenses/mit-license.php