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pachterlab / kite

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Error: Number of files (40) does not match number of input files required by technology 10XV1 (3) #7

Closed chrarnold closed 3 years ago

chrarnold commented 3 years ago

Hi, I am receiving the following error when running KITE with a dataset with 10x v1 chemistry (a 5' capture, see here: https://support.10xgenomics.com/single-cell-vdj/library-prep/doc/user-guide-chromium-single-cell-vdj-reagent-kits-user-guide-v1-chemistry-with-feature-barcoding-technology-for-cell-surface-protein):

Error: Number of files (40) does not match number of input files required by technology 10XV1 (3)

It started running when specifying v3 chemistry and it works, but the v1 chemistry has been used. Also, for the 5' capture kit, only v2 has been published a few months ago, and there is no v3 yet.

A coworker told me that I might specify v2 as it seems similar to the 5' v1 kit. I started running, and it at least starts, results I dont have yet.

So overall: Can I still run KITE for this kind of data and if yes, which chemistry I should specify?

Thanks!

chrarnold commented 3 years ago

Can be closed, after learning that an arbitrary chemistry string can be specified.