eHoPASA Files

eHoPASA extension for graphical presentation of homozygous regions over LGMD2 genes

Copyright 2010 by the Center for Medical Research, Medical University Graz.
Written by Slave Trajanoski.
For questions on EHoPASA, please contact Slave Trajanoski
(slave.trajanoski@medunigraz.at).

The limb girdle muscular dystrophies (LGMD) are a clinically and genetically 
heterogeneous group of primary muscle disorders characterised by progressive 
weakness and wasting, predominating in muscles of the pelvic and shoulder 
girdle, with occasional involvement of the myocardium [1,2]. 
To date, 15 genes for autosomal recessive LGMD (LGMD2) have been identified.
This short R script helps you to visualize the homozygous regions discovered 
with eHoPASA over these regions. The script generates a single image file in 
PNG format.

Requirements
* installed and working version of the R statistical programming language software 
version 2.10 or higher
* the script is tested only under Windows environment

All you have to do is run the following command in a working directory where 
the two additional text files coming with the script are also saved 
(chr_info_250K.txt and LGMD2_UCSC_250K.txt):

$path_to_R_executable\R.exe --slave --args argument1 argument2 argument3< graphic.r

argument1 - sample or field name from the report file with the number of 
consecutive homozygous genotypes
argument2 - title name for the diagram
argument3 - report file name

Notice: if you want to use empty space in your argument please enclose the 
argument with apostrophe ("argument").