Get significant ICA genes

Given feature loadings obtained from independent component analysis (ICA), significant genes for each component are identified.

getICAGenes(
  feature.loading,
  fdr.cutoff = 1e-04,
  local.fdr = T,
  assert.positive.skew = T,
  only.pos = T
)

Arguments

feature.loading

ICA feature loadings

fdr.cutoff

FDR threshold. Default is 0.0001.

local.fdr

Whether to use local FDR. Default is T.

assert.positive.skew

Whether to ensure that max(|feature.loading|) is positive. Default is T.

only.pos

Whether significant genes are positively loaded only. Default is T.

Value

named list of ICA gene programs

References

https://nmikolajewicz.github.io/scMiko/articles/Module_Detection.html

See also

runICA for independent component analysis.

Author

Nicholas Mikolajewicz