Question

How to change ensembl ids to gene names before analysis using count table?

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rajeshparmar4 ▴ 10

@rajeshparmar4-22077

Last seen 4.8 years ago

UCLA

Hello, I am trying to convert ensembl ids to gene names or gene symbol before analysis. How I will convert this?

And how I convert in the results file from DESeq2 or EdgerR??

ensemblid • 1.4k views

ADD COMMENT • link updated 5.1 years ago by Michael Love 43k • written 5.1 years ago by rajeshparmar4 ▴ 10

score 0 · Answer 1 · 2019-12-03

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Michael Love 43k

@mikelove

Last seen 2 days ago

United States

This isn't a DESeq2 question. See the AnnotationDbi package.

ADD COMMENT • link 5.1 years ago Michael Love 43k

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I had analyzed my data by using DESeq2, but I am unable to convert ensembl ids to gene names or gene symbol in dds object. Is it possible to do in DESeq2 before or after runnine DESeq2?

ADD REPLY • link 5.1 years ago rajeshparmar4 ▴ 10

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Just saying you are unable to do something without showing what you tried isn't helpful. We can't know if you just sat there staring at your screen, willing it to happen, or if you actually wrote some code and got results you didn't expect.

Also, Mike already pointed you to the package that you use to do that sort of thing. Have you read the vignette? Please try to be more explicit about what you have tried, and the exact technical issue you are having.

ADD REPLY • link 5.1 years ago James W. MacDonald 67k