JAGUAR (version 3.0.1)

jaguar_slice: Slice gene expression data into multiple partitions

Description

Function to 1) create sub-directories, 2) slice gene expression data into partitions of predetermined size, and 3) sliced gene expression partitions are deposited into each sub-directory

Usage

jaguar_slice(geneexp,size,path=getwd())

Arguments

geneexp

A matrix of gene expression data with gene on rows and patient samples on columns. There has to be equal number of samples in each group. Samples (columns in the geneexp object) with missing gene expression values for any group/tissue MUST be included in the data

size

Integer indicating the size of each slice of gene expression data.

path

Location for the sub-directories. Please give the full path. Default is set to the current directory.

References

Chaitanya R. Acharya, Kouros Owzar, Janice M. McCarthy and Andrew S. Allen; Exploiting expression patterns across multiple tissues to map expression quantitative trait loci. BMC Bioinformatics (2016) 17:257 DOI 10.1186/s12859-016-1123-5

See Also

jaguar_gwa,jaguar_process,jaguar_sim,jaguar_plotqtl,jaguar_cis

Examples

# Set the size of the partition
# size = 100; ## Indicates the number of genes in each partitioned gene exp data
#
# Assuming that the path is the default getwd()
# jaguar_slice(geneexp,size)