Using StringTie with DESeq2 (StringTie geneID and corresponding Ensembl geneID)

Question

Using StringTie with DESeq2 (StringTie geneID and corresponding Ensembl geneID)

Opened this issue 6 years ago · 0 comments

xxz19900 commented 6 years ago

Hi, Erin. I am doing transcript reconstruction and quantification using StringTie and DEA using DESeq2. I have generated the count matrices of genes and transcripts using the python script prepDE.py provided by https://ccb.jhu.edu/software/stringtie/index.shtml?t=manual . However the gene id and transcript id are all StringTie id, how can I generate the matrices contain both StringTie id and corresponding Ensembl id? Thanks.