query_pval_ngenes: Query using p-values to choose number of genes

Description Usage Arguments Value

View source: R/query_ngenes.R

Description

Query using p-values to choose number of genes

Usage

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query_pval_ngenes(
  dprimes,
  drug_info,
  pvals,
  breaks = c(seq(0.01, 0.3, 0.01), seq(0.3, 1, 0.05))
)

Arguments

dprimes

List with names of signatures to query with. Each item of list is named a numeric vector of effect size values with names corresponding to the gene.

drug_info

Matrix of differential expression values to query against. Row names are genes and column names are signatures.

pvals

Same as dprimes but p-values or FDRs in place of effect size values.

breaks

Breaks to use for determing ngenes argument to query_drugs.

Value

Named list with items:

resl

For each value of breaks, a list of pearson correlations between each signature in dprimes and drug_info.

ngenes

For each value of breaks, a numeric vector indicating the number of genes used for the query.

@seealso query_drugs


alexvpickering/ccbench documentation built on April 11, 2020, 12:28 a.m.