Possible to run liana_tensor_c2c function with external_resource/orthologs?

[SteGruener]

Dear developers,

Thank you for this great package and for your extensive effort to properly document it!

I have a question regarding the liana_tensor_c2c function/workflow: Is there somehow an implemented way to combine this with the use of an external resource (gene orthologs), e.g. for using it on mouse data?

All the best,
Stephan

[hmbaghdassarian]

Hi Stephan,

For R, check out this tutorial on ortholog mapping. For python, liana has a human consensus 'consensus' and mouse consensus 'mouseconsensus' resource options you can specify in the resource_name argument. You can also map genes as shown here. This is all @dbdimitrov's work, so Daniel correct me if I'm wrong.

For use of custom resources see these sections of our tutorials in Python and R. Let me know if this answers your question.

[dbdimitrov]

Hi, yes you could. Both the R and Python liana packages support conversion /w external orthologues. For R it's the one that Hratch shared, for Python you could check this tutorial.