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caokai1073 / uniPort

a unified single-cell data integration framework by optimal transport
MIT License
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Joint analysis of paired and unpaired multiomic data #6

Open ccruizm opened 1 year ago

ccruizm commented 1 year ago

Good day!

I am interested in using your tool and would like to know whether it is suitable to integrate paired and unpaired multiomic data. In this case, I have samples with only scRNA and scATAC as well as paired multiome (RNA+ATAC).

In case it is possible, how to set up the pipeline to take into account the three 'batches'.

Thanks in advance!

caokai1073 commented 1 year ago

Hello, thank you for your interest in our model. Presently, the model is capable of performing integration on paired data when using 'mode=v', and on unpaired data when using 'mode=h'. However, it's important to note that it cannot process both data types simultaneously.

We appreciate you bringing this to our attention, as this particular capability had not been identified as a requirement prior to your inquiry. Based on the demand and necessity, we may consider adding this function to our model in the future.