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error when using 'identifyCommunicationPatterns' function #40

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AlfredShawn opened this issue Sep 4, 2020 · 0 comments
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error when using 'identifyCommunicationPatterns' function #40

AlfredShawn opened this issue Sep 4, 2020 · 0 comments

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@AlfredShawn
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AlfredShawn commented Sep 4, 2020

Thanks for developing this powerful tool! I am testing with our own scRNAseq data. Everything works good by following the walkthrough vignette, until the 'identifyCommunicationPatterns' function:

nPatterns = 5
cellchat <- identifyCommunicationPatterns(cellchat, pattern = "outgoing", k = nPatterns)

Error in (new("standardGeneric", .Data = function (x) :
unused arguments (model = list("NMFstd", 5, 0), method = "nndsvd")

It looks like an error related to the calling of nmf function. Could you help debug this? Thanks!

Yu

Found the solution under NMF installing section. Issue solved. Please close this. Thanks.

@sqjin sqjin closed this as completed Sep 4, 2020
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