How to remove pseudo genes from a list

Question

[Meghan.T]

I am doing DGE analysis and some of the DEGs that I get seem to be pseudogenes. I was wondering if there is a source or any way to remove the pseudo genes and nonconding RNAs from the count matrix all at once?

Answer 1

[LChart]

Use ensembl (either through biomaRt or by downloading the gtf), and use the gene_biotype field to identify the genes you want to keep or exclude.

[Meghan.T]

Great! Thank you very much!