ptGetTop: Find the best gene pairs for training

In pcahan1/cancerCellNet: CellNet, for cancer

Find the best gene pairs for training

Description

Find the gene pairs that most distinguish a cancer group from the rest

Usage

ptGetTop(
  expDat,
  cell_labels,
  cgenes_list = NA,
  topX = 50,
  sliceSize = 5000,
  quickPairs = FALSE,
  coreProportion = 1/4
)

Arguments

expDat	expDat
cell_labels	named vector, value is grp, name is cell name
cgenes_list	the list of labelled cgenes
topX	number of genepairs for training
sliceSize	the size of the slice for pair transform. Default at 5e3
quickPairs	TRUE if wanting to select the gene pairs in a quick fashion
coreProportion	the proportion of logical cores for finding top scoring gene pairs (not applicable for quick pairs)

Value

vector of top gene-pair names

pcahan1/cancerCellNet documentation built on July 16, 2022, 12:12 a.m.