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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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.addSignificantGenes only include a subset of genes/regions included in the whole database. #197

Closed AAA-3 closed 2 years ago

AAA-3 commented 3 years ago

I subset a cluster from Seurat and loaded it in and everything was fine until I ran

scenicOptions <- runSCENIC_2_createRegulons(scenicOptions)

and got the following warning: 

5: In .addSignificantGenes(resultsTable = resultsTable, geneSets = geneSets,  :
  The rakings provided only include a subset of genes/regions included in the whole database.

Anyone know how to resolve this? The vignette from RcisTarget seems to also have this error.

I have run the code on the same RDS file before without encountering this problem...my interpretation of this is that this is not a major issue and downstream analysis can still continue. Is this correct?