How to convert WHEAT gene IDs from a gtf file to GO

Question

[barvazduck]

Hi,

I just finished analyzing RNA-seq data from wheat and would like to find the matching GO terms.

Anyone know how could I convert the gtf ID to a GO term?

I looked at ensembl and could find GOs by manual search but this is a long list and I could not find the full gtf ID -> GO conversion.

TNX!

Answer 1

[Parham]

You need to either use packages or write your own codes. I use goseq for GO enrichment analysis http://bioconductor.org/packages/release/bioc/html/goseq.html. In that case you have to provide some inputs like gene-length and so on to package for analysis. Note: goseq runs in R.