Error while running GoSeq after cut the required columns and preparing the DE and Length files

usegalaxy.org.au support
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Welcome @Haifa_Hammad :slight_smile:

Thanks for sharing the error details! Very helpful. This the part to pay attention to

Using manually entered categories
incorrect number of dimensions

This usually means the issue is with the category mapping file, not the GeneID/True/False or GeneID/Length inputs.

For GOseq, the category file should be very simple: 2 columns only

GeneID    CategoryID

gene1 GO:0008150
gene1 GO:0003674
gene2 GO:0009987

Common problems:

  • More than 2 columns
  • Missing tab separation
  • GeneIDs not matching your other two files exactly
  • File formatted as a matrix instead of a simple 2-column list

Some prior discussions are here:

If you want to try to resolve it yourself with more of the text manipulation tools, we have some resources:

Or, you can generate a share link to your history and post that back in a reply, then unshare after we are done.

Let’s start there and if you solve this, please let us know! I’ll watch for your reply. :rocket: