clusterSweep Warning k Capped
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Entering edit mode
Dario Strbenac ★ 1.5k
@dario-strbenac-5916
Last seen 16 hours ago
Australia

For the command

try <- list(resolution = seq(0.1, 1, 0.1))
scData <- t(reducedDim(cancer, "PCA"))
clusterSweep(scData, BLUSPARAM = NNGraphParam(), cluster.args = try, cluster.fun = "louvain")

I see

Warning messages:
1: In .refine_k(k, precomputed, query = FALSE) :
  'k' capped at the number of observations minus 1
2: In .refine_k(k, precomputed, query = FALSE) :
  'k' capped at the number of observations minus 1
3: In .refine_k(k, precomputed, query = FALSE) :
  'k' capped at the number of observations minus 1

What, if anything, needs to be done?

bluster • 158 views
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