Search
Question: Converting annotation from UCSC to Ensembl
0
gravatar for AB
23 months ago by
AB0
United States
AB0 wrote:

Hi everybody,

I am doing differential gene expression analysis on 22 samples from 3 batches. I have the count matrix generated using summarizeOverlaps() function. The reference genome is mm10 from UCSC. I need the annotation in Ensemble to compare my results with the results from another person using the same dataset. Is there anyway I can use R to find the corresponding Ensemble IDs ?

Thanks

ADD COMMENTlink modified 23 months ago by James W. MacDonald45k • written 23 months ago by AB0
1
gravatar for James W. MacDonald
23 months ago by
United States
James W. MacDonald45k wrote:

You would use the org.Mm.eg.db package and the select() function. See the AnnotationDbi vignette for examples.

ADD COMMENTlink written 23 months ago by James W. MacDonald45k

Worked. Thank you very much. 

ADD REPLYlink written 23 months ago by AB0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 113 users visited in the last hour