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yjzhang / split-seq-pipeline

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Error in creating DGE matrix #18

Closed Ru194 closed 4 years ago

Ru194 commented 4 years ago

Hi, I have been trying to preprocess Split-seq data and am running into some issues. While running Split-Seq All command, I get the following error as it starts generating the DGE matrix:

ValueError: cannot reshape array of size 0 into shape (0,newaxis)

Could you please look into this and help me figure out what this could mean?

bettycatherine commented 4 years ago

Hi, I have encountered the same problem, did you figure out what exactly go wrong? Thank you.

Ru194 commented 4 years ago

oh yes, I used --chemistry v1 instead of V2 and that worked.

yjzhang commented 4 years ago

Yes, the published split-seq datasets generally use chemistry v1.

bettycatherine commented 4 years ago

yeah, thank you all, it worked.