Error : runSCENIC_3_scoreCells

aertslab / SCENIC

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

http://scenic.aertslab.org

GNU General Public License v3.0

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Error : runSCENIC_3_scoreCells #293

Open lagom2728 opened 2 years ago

lagom2728 commented 2 years ago

Currently, the error "Error in readRDS(tSNE_fileName) : bad 'file' argument" in the runSCENIC_3_scoreCells function seems to be occurring to other users as well. Has this part been resolved??

If it hasn't been resolved, how can I fix it?? It's so urgent, developers, please help.

s-aibar commented 2 years ago

Dear @lagom2728

Can you indicate which other users are having this same issue? (maybe #227 ? ) I cannot reproduce the error myself...

AnjaliS1 commented 2 years ago

I have also just came across the same issue.

ZachLW commented 1 year ago

Hi, These codes rescue me: scenicOptions@settings$defaultTsne$aucType <- "AUC" scenicOptions@settings$defaultTsne$dims <- 5 scenicOptions@settings$defaultTsne$perpl <- c(5,15,50) scenicOptions <- runSCENIC_3_scoreCells(scenicOptions, exprMat_log)

Hope them help.