rcpp_pStrata_parallel: rcpp_pStrata_parallel

In drostlab/myTAI: Evolutionary Transcriptomics

rcpp_pStrata_parallel

Description

computes the partial transcriptome evolutionary index (TEI) values combined into strata

Usage

rcpp_pStrata_parallel(expression, ps, psgroup, ncores = 1L)

Arguments

expression	ExpressionSet as sparseMatrix
ps	named Phylostratum
psgroup	ordered unique Phylostratum
ncores	number of cores

Value

sparseMatrix

Author(s)

Kristian K Ullrich

Examples

## load example PhyloExpressionSetExample

data("PhyloExpressionSetExample", package="myTAI")

## convert into sparseMatrix - rownames GeneID

spmat <- as(data.matrix(PhyloExpressionSetExample[,-c(1,2)]),
    "sparseMatrix")
rownames(spmat) <- PhyloExpressionSetExample$GeneID

## create named Phylostratum vector

ps <- setNames(PhyloExpressionSetExample$Phylostratum,
    PhyloExpressionSetExample$GeneID)
psgroup <- sort(unique(ps))

## get pStrata
rcpp_pStrata_parallel(spmat, ps, psgroup)

drostlab/myTAI documentation built on April 8, 2024, 8:24 a.m.