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HectorRDB / condiments

Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
https://hectorrdb.github.io/condiments/
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Trajectory inference multiple conditions #3

Closed dhivyaa-6 closed 2 years ago

dhivyaa-6 commented 3 years ago

I followed the analysis of the kras dataset and implementing the same for a multi-condition (5 conditions) trajectory inference. I have issues in the step

sds <- do.call(merge_sds, sdss) Where I get the error Error in (function (..., mapping, condition_id = seq_len(ncol(mapping)), : Some lineages are not mapped

However it works when I try for 2 conditions. Is there something am missing while analyzing 5 conditions at the same time? I also tried for 3 and did not work. I went through the reference manual for the merge_sds function and still get the same error.

HectorRDB commented 3 years ago

Hi @dhivyaa-6 There is no reasons, i should not work for 5 conditions. However, given the error message, I think it comes from the fact that some of the trajectories do not have all lineages.

Did you check that? Alternatively, you can provide the mapping matrix yourself as well. Best

HectorRDB commented 2 years ago

Closing after a month of inactivity. Feel free to re-open if the issue persists