AnaCoDa (version 0.1.0)

addObservedSynthesisRateSet: Add gene observed synthesis rates

Description

addObservedSynthesisRateSet returns the observed synthesis rates of the genes within the genome specified.

Usage

addObservedSynthesisRateSet(genome, observed.expression.file,
  match.expression.by.id = TRUE)

Arguments

genome

A genome object initialized with initializeGenomeObject to add observed expression data.

observed.expression.file

A string containing the location of a file containing empirical expression rates (optional).

match.expression.by.id

If TRUE (default) observed expression values will be assigned by matching sequence identifier. If FALSE observed expression values will be assigned by order

Value

gene.names Returns the names of the genes as a vector of strings.

Examples

# NOT RUN {
genome_file <- system.file("extdata", "genome.fasta", package = "AnaCoDa")
expression_file <- system.file("extdata", "expression.csv", package = "AnaCoDa") 
## reading genome
genome <- initializeGenomeObject(file = genome_file)


## add expression values after the genome was initiallized, 
## or adding an additional set of expression values
addObservedSynthesisRateSet(genome = genome, observed.expression.file = expression_file)

# }