Question: Deseq2 give me sequence instead of gene ID
0
gravatar for epr8889
14 months ago by
epr88890
epr88890 wrote:

Hi everyone,

I am using deseq2 to test differential expression from salmon files (TPM) with a reference transcriptome from ncbi (ftp://ftp.ncbi.nih.gov/refseq/M_musculus/mRNA_Prot/). The tool works and gave me results but instead of gene ID (NM_**) it gave me all the transcript sequence. So it's difficult to analyse my data. Is there a solution?

Thanks!

rna-seq salmon deseq2 • 406 views
ADD COMMENTlink written 14 months ago by epr88890
1
gravatar for Devon Ryan
14 months ago by
Devon Ryan1.9k
Germany
Devon Ryan1.9k wrote:

Did you give salmon the transcript to gene ID mapping file?

ADD COMMENTlink written 14 months ago by Devon Ryan1.9k
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