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single-cell-genetics / vireo

Demultiplexing pooled scRNA-seq data with or without genotype reference
https://vireoSNP.readthedocs.io
Apache License 2.0
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-N flag behavior #68

Closed racng closed 2 years ago

racng commented 2 years ago

If I know that a sample has only 10 donors and my donor genotype file has exactly 10 samples. Would adding-N 10 flag change the behavior of vireo? Would it try to do some kind of learning and clustering first if I provide -N? Or try to directly match with the genotype file?

huangyh09 commented 2 years ago

Hi, if they are equal, -N will be omitted. When -N is larger than that in donor VCF, then it will do clustering first then match to that in VCF.

Yuanhua