Difference between revisions of "LocusZoom Standalone"
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LocusZoom standalone requires the following: | LocusZoom standalone requires the following: | ||
| − | * | + | * [http://www.python.org/download/ Python 2.6] (do '''not''' download the 3.0 branch!) |
| − | * | + | * [http://www.r-project.org/ R 2.10+] |
| + | * [[New_Fugue|new_fugue]], a program for computing LD, written by Goncalo Abecasis. | ||
== Synopsis == | == Synopsis == | ||
| + | === A quick example === | ||
| + | |||
| + | First, change directory into examples/. Then, run the following command: | ||
| + | |||
| + | <pre>./run_example.py</pre> | ||
| + | |||
| + | This script runs the following command for you: | ||
| + | |||
| + | <pre>../bin/locuszoom --metal Kathiresan_2009_HDL.txt --refgene FADS1</pre> | ||
| + | |||
| + | A PDF plot of the FADS1 locus will be created in the directory. Voila, your first region plot! | ||
== Installation == | == Installation == | ||
Revision as of 11:16, 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.
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!
