investigate_target: Investigate a Given Gene or Drug

In AliSajid/DrugDiscoveryPanCan: Investigate Drug Targets for Kinase Therapies

Description

This function takes the name of a gene or a drug and a database to use to pull signatures from and then queries iLINCS to get concordant signatures

Usage

investigate_target(
  target,
  input_lib,
  output_lib,
  filter_threshold = 0.85,
  similarity_threshold = 0.321,
  paired = TRUE,
  input_cell_lines = NULL,
  output_cell_lines = NULL,
  discordant = FALSE
)

Arguments

target	The name of the gene or drug
input_lib	One of "OE", "KD" or "CP". Marks the database to use.
output_lib	One of "OE", "KD" or "CP". Marks the database to query.
filter_threshold	The Filtering threshold.
similarity_threshold	The Similarity Threshold
paired	Logical. Whether to query iLINCS separately for up and down regulated genes
input_cell_lines	A character vector of cell lines to restrict our search for input signatures to.
output_cell_lines	A character vetor of cell lines to restrict the output search to.
discordant	Logical. Whether to look for discordant signatures

Value

A tibble with the the similarity scores and signature metadata

Examples

TRUE

AliSajid/DrugDiscoveryPanCan documentation built on Feb. 4, 2021, 6:31 a.m.