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This repository has been archived by the owner on Jan 24, 2024. It is now read-only.
However, pval is only provided and stored in net when running the computeCommunProb function.
The computeCommunProbPathway function only provides prob and not pval. Therefore methods::slot(object, "netP")$pval is NULL. The probabilities is not adjusted when slot.name = "netP".
The text was updated successfully, but these errors were encountered:
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Based on the current
netAnalysis_computeCentrality
function, theprob
values are adjusted ifpval
did not meet thethresh
, i.e. set to 0 in L206.CellChat/R/analysis.R
Lines 201 to 208 in 418b660
However,
pval
is only provided and stored innet
when running thecomputeCommunProb
function.The
computeCommunProbPathway
function only providesprob
and notpval
. Thereforemethods::slot(object, "netP")$pval
isNULL
. The probabilities is not adjusted whenslot.name = "netP"
.The text was updated successfully, but these errors were encountered: