get_p100_expression: Retrieve Broad P100 data, plate normalized log2 fold change.

In schurerlab/LINCSanalytics:

Description

Retrieve Broad P100 data, plate normalized log2 fold change.

Usage

get_p100_expression(filter_foldchange = "none", proteins = "all",
  uniprot_ids = "all", cells = "all", perturbagens = "all",
  perturbagen_dose = "all", perturbagen_time = "all", replicates = "all",
  limits = 1000)

Arguments

filter_foldchange	string expressing a threshold for specific log2 fold change retrieval (default "all", admissible ">value" or "<value")
proteins	vector of strings with protein names (Default "all")
uniprot_ids	vector of strings with protein uniprot IDs (Default "all")
cells	vector of strings with cell names (Default "all")
perturbagens	vector of strings with perturbagens IDs (Default "all")
perturbagen_dose	numeric vector with perturbagen doses (Default "all")
perturbagen_time	numeric vector with perturbagen times (Default "all")
replicates	string, return each replicate separately (Default "all") or aggregated as averge value (using replicates = "mean")
limits	numeric value, return only the specified number of rows (Default 1000)

Value

data frame containing entity selected and the associated plate normalized log2 fold change

Examples

get_p100_expression(cells = c("MCF7","PC3"))
get_p100_expression(genes = c("EGF","RHEB"))
get_p100_expression(cells = c("MCF7","PC3"),filter_zscores=">2")
get_p100_expression(cells = c("MCF7","PC3"),filter_zscores=">2")
get_p100_expression(perturbagens = "BRD-K60230970-001-10-0")

schurerlab/LINCSanalytics documentation built on May 31, 2019, 2:56 p.m.