dummyCNOlist: Create dummy CNOlist

Description Usage Arguments Value Author(s) Examples

View source: R/bnem_main.r

Description

creates a general CNOlist object from meta information

Usage

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dummyCNOlist(
  stimuli = NULL,
  inhibitors = NULL,
  maxStim = 0,
  maxInhibit = 0,
  signals = NULL
)

Arguments

stimuli

character vector of stimulated genes

inhibitors

character vector of inhibited genes

maxStim

maximal number of stimulated genes for a single experiment

maxInhibit

maximal number of inhibited genes for a single experiment

signals

character vector of genes which can directly regulate effect reporters

Value

CNOlist object

Author(s)

Martin Pirkl

Examples

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sifMatrix <- rbind(c("A", 1, "B"), c("A", 1, "C"), c("B", 1, "D"),
c("C", 1, "D"))
write.table(sifMatrix, file = "temp.sif", sep = "\t", row.names = FALSE,
col.names = FALSE,
quote = FALSE)
PKN <- CellNOptR::readSIF("temp.sif")
unlink('temp.sif')
CNOlist <- dummyCNOlist("A", c("B","C","D"), maxStim = 1, maxInhibit = 2,
signals = c("A", "B","C","D"))

MartinFXP/B-NEM documentation built on Aug. 30, 2020, 8:22 a.m.