score_genes: Score candidate genes and select the top n genes

In almeidasilvaf/cageminer: Candidate Gene Miner

Score candidate genes and select the top n genes

Description

Score candidate genes and select the top n genes

Usage

score_genes(
  mined_candidates,
  hubs = NULL,
  tfs = NULL,
  pick_top = 10,
  weight_tf = 2,
  weight_hub = 2,
  weight_both = 3
)

Arguments

mined_candidates	Data frame resulting from mine_candidates() or mine_step().
hubs	Character vector of hub genes.
tfs	Character vector of transcription factors.
pick_top	Number of top genes to select. Default: 10.
weight_tf	Numeric scalar with the weight to which correlation coefficients will be multiplied if the gene is a TF. Default: 2.
weight_hub	Numeric scalar with the weight to which correlation coefficients will be multiplied if the gene is a hub. Default: 2.
weight_both	Numeric scalar with the weight to which correlation coefficients will be multiplied if the gene is both a TF and a hub. Default: 3.

Value

Data frame with top n candidates and their scores.

Examples

data(tfs)
data(hubs)
data(mined_candidates)
set.seed(1)
scored <- score_genes(mined_candidates, hubs$Gene, tfs$Gene_ID)

almeidasilvaf/cageminer documentation built on Sept. 9, 2023, 5:18 p.m.