Entering edit mode
3.7 years ago
Cordyline
•
0
Hi all,
First of all, I am a novice in analysing RNA seq data, so sorry for my question and let me know if I need to provide more information.
I have a list of genes and their associated GO Ids (not GO description). I would like to perform a similar analysis as in http://wego.genomics.org.cn/, just plotting my GO annotation. I would like to have the number of genes (list of genes) associated to each GO id, with the GO description associated to perform simple graphs. Is it possible with the GO.db package ? And how exactly ?
Many thanks for your help.
Please, show us how it looks the data that you have.
For instance if you have a file with genes and their respective GO IDs, and you just want to do a bar plot with them, highlighting how often each GO appears in your data set, you don't need any particular package regardless the ones for data wrangling and plotting (assuming that you're using for instance R).
However, the second figure (on the right side) that appears in the link that you've provided requires GO enrichment analysis. For that you need to have a list of genes differently expressed across some condition and then perform GO enrichment using for example topGO R package or DAVIS web resource.
I hope this helps,
António