exptabTE: Expression level table from a 'taxonExp' class

In jingwyang/TreeExp: the R package for analyzing expression evolution based on RNA-seq data

Description

Generate an expression level table from a taxonExp object

Usage

exptabTE(objects = NULL, taxa = "all", subtaxa = "all",
  rowindex = NULL, logrithm = TRUE)

Arguments

objects	a vector of objects of class taxonExp or an object of class taxaExp
taxa	one single character or a vector of characters specifying main taxa to be included in the expression level table. If one single character "all" is given, all the taxa included in the taxaExp will be matched and included ("all" by default).
subtaxa	one single character or a vector of characters specifying sub taxa to be included in the expression level table. If one single character "all" is given, all the subtaxa included in the taxaExp will be matched and included ("all" by default).
rowindex	a vector of numbers corresponded to indices of selecting rows
logrithm	a logical specifying whether to apply expression value log2 tranformation (TRUE by default).

Value

an expression level table: column corresponds to median expression value of all biological samples within one 'taxa_subtaxa' group; row corresponds to othologous genes

Examples

data('tetraExp')
expression_table <- exptabTE(tetraExp, taxa = "all",subtaxa = "Brain")

jingwyang/TreeExp documentation built on June 11, 2019, 6:17 p.m.