Error with marker genes mapping to the taxonomy

Hi @scaradonna

It looks like you are mapping human data onto the Whole Mouse Brain taxonomy. I say this because the genes in your data are identified with human ENSEMBL IDs (ENSG12345 as opposed to ENSMUSG12345), while the configuration for your job is pointing at the data files for the Whole Mouse Brain taxonomy. Do you agree that this is what you are trying to do?

If so: you will need to create a new h5ad files in which the genes are labeled as mouse orthologs of the human genes. MapMyCells does not yet have the ability to automatically find cross-species gene orthologs. You need to do that before submitting your data to MapMyCells. The science teams at the Allen Institute have provided this GitHub repository to help in finding cross-species gene orthologs.

Does this help?

1 Like