LocusZoom Standalone: Difference between revisions
From Genome Analysis Wiki
Jump to navigationJump to search
No edit summary |
No edit summary |
||
| Line 10: | Line 10: | ||
* [http://www.r-project.org/ R 2.10+] | * [http://www.r-project.org/ R 2.10+] | ||
* [[New_Fugue|new_fugue]], a program for computing LD, written by Goncalo Abecasis. | * [[New_Fugue|new_fugue]], a program for computing LD, written by Goncalo Abecasis. | ||
Currently only Unix/Linux is supported, though Mac OS X should be supported in a future release. | |||
== Synopsis == | == Synopsis == | ||
Revision as of 16:02, 20 May 2010
This page contains information regarding a version of LocusZoom that may be downloaded for personal use. For more information on LocusZoom, see this page.
Requirements
LocusZoom standalone requires the following:
- Python 2.6 (do not download the 3.0 branch!)
- R 2.10+
- new_fugue, a program for computing LD, written by Goncalo Abecasis.
Currently only Unix/Linux is supported, though Mac OS X should be supported in a future release.
Synopsis
A quick example
First, change directory into examples/. Then, run the following command:
./run_example.py
This script runs the following command for you:
../bin/locuszoom --metal Kathiresan_2009_HDL.txt --refgene FADS1
A PDF plot of the FADS1 locus will be created in the directory. Voila, your first region plot!
