Identify and (optionally) prune gene program features in scale-free shared nearest neighbor network (SSN)

pruneSSN(object, graph = "RNA_snn_power", prune.threshold = 0.1, return.df = F)

Arguments

object

Seurat object objected from SSN analysis.

graph

name of shared nearest neighbor (SNN) graph used for SSN analysis.

prune.threshold

threshold used for pruning features from SSN graph (features with low connectivity are preferentially pruned). Default is 0.1.

return.df

whether to return data.frame instead of named list.

Value

Returns named list of SSN gene program features.

See also

runSSN for SSN analysis

Author

Nicholas Mikolajewicz