pheno2geno (version 1.4.0)

pull.biomarkers: Extract the detected biomarkers from a population object.

Description

Extract the detected biomarkers from a population object, or select biomarkers that best match a certain pattern.

Usage

pull.biomarkers(population, pattern, verbose=FALSE)

Arguments

population

An object of class population. See create.population for details.

pattern

Vector containg pattern to be matched in markers.

verbose

Be verbose.

Value

Matrix of all markers / vector with markers best matching the specified pattern.

Details

After running generate.biomarkers function, biomarkers are stored inside population class object. Use the pull.biomarkers function to extract them from the popuklation object into a matrix. This will return a matrix will all the markers or when pattern is specified a vector with biomarkers best matching the pattern.

See Also

• generate.biomarkers - Create genotype markers out of gene expression data.

• read.population - Load genotype, phenotype, genetic map data files into R environment into a population object.

• cross.denovo - Create de novo genetic map or vector showing how chromosomes should be assigned.

• cross.saturate - Saturate existing map.

• find.diff.expressed - Using Rank Product or student t-test analysis to select differentially expressed genes.

Examples

# NOT RUN {
  data(testPopulation)
  markers <- pull.biomarkers(testPopulation,verbose=TRUE)
  bestMarker <- pull.biomarkers(testPopulation,round(runif(148)),verbose=TRUE)
# }