getLists: Returns a list of lists of homoeologs, singletons, CRH, URH &...

In exseivier/toolBox: R libraries utils for miscellaneous tasks

Description

Takes three character vectors: total genes, path where *.data.f* files are, and the stage ["fu"|"fd"]. It returns the homoeologue, singleton, CRH, URH, NRH, SIN & the genes and #miRNA families table for every one vector.

homoeologs: Homologue genes of an hybrid specie, which come from different parental line. singleton: Homologue genes of an hybrid specie, which come from different parental line but one gene has lost its partner. CRH: Homoeologue genes which are regulated as a couple by at least one microRNA family. URH: Homoeologue genes which are not regulated as a couple by at least one microRNA family. NRH: Homoeologue genes which are not regulated by any microRNA family. SIN: Singleton genes which are regulated by at least one microRNA family. Also it returns the SIN, CRH and URH tables of gene name and # regulatory microRNAs. Total genes, homoeologues and singletons gene names also are returned.

Usage

	getLists(total_genes = tgenes, genes = miRNA_targets)

Arguments

total_genes	A vector character of the total genes
genes	A character vector of the predicted miRNA taget genes

Examples

	lists <- getLists(total_genes = tgenes, genes = genes)

exseivier/toolBox documentation built on May 29, 2019, 10:37 a.m.