Question: Converting annotation from UCSC to Ensembl
0
gravatar for AB
4.0 years ago by
AB70
United States
AB70 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

annotation ensembl ucsc • 1.6k views
ADD COMMENTlink modified 4.0 years ago by James W. MacDonald52k • written 4.0 years ago by AB70
Answer: Converting annotation from UCSC to Ensembl
1
gravatar for James W. MacDonald
4.0 years ago by
United States
James W. MacDonald52k wrote:

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

ADD COMMENTlink written 4.0 years ago by James W. MacDonald52k

Worked. Thank you very much. 

ADD REPLYlink written 4.0 years ago by AB70
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