How to get gene expression value from Arrayexpress
|
|
ArrayExpress has a wonderful R package for data search, download and analysis but it doesn't always work in perfection. Therefore it always good to have an alternative to download the raw data/CEL and analyze it. This R script will simply take the accession number in command line argument and save the expression data in a file named as Gene_expression.txt.
How to download expression data set from NCBI GEO HERE
Prerequisite
We need the following R libraries to run the script
- ArrayExpress
- aff
Uses
Rscript script_name accession_number
Limitations
- This script is written specifically for Arabidopsis data sets, therefore, you have to modify it as per your requirement.
Script
|
Was This Post Useful? Add This To Del.icio.us Share on Facebook StumbleUpon This Add to Technorati Share on Twitter |
Subscribe to:
Post Comments (Atom)
No comments:
Post a Comment
Have Problem ?? Drop a comments here!