speciesCounts: Gene/TE expression data from human/chimpanzee brain RNA-seq

In ferygood/TEKRABber: An R package estimates the correlations of orthologs and transposable elements between two species

Gene/TE expression data from human/chimpanzee brain RNA-seq

Description

Dataset contains 4 expression data from human and chimpanzee brain RNA-seq. We select raw fastq data from 10 humans and 10 chimpanzees from (Khrameeva E et al., 2020). Gene expression is generated using HISAT2 and featureCounts (Kim D et al., 2019; Liao Y et al., 2014). Transposable elements (TEs) expression is generated with multi-mapping option using STAR and TEtranscripts (Dobin A et al., 2013; Jin Y et al., 2015).

Usage

data(speciesCounts)

Format

An object contains 4 expression counts:

hmGene

human gene expression data

hmTE

human TE expression

chimpGene

chimpanzee gene expression data

chimpTE

chimpanzee TE expression data

Examples

data(speciesCounts)
hmGene <- speciesCounts$hmGene
hmTE <- speciesCounts$hmTE
chimpGene <- speciesCounts$chimpGene
chimpTE <- speciesCounts$chimpTE

ferygood/TEKRABber documentation built on July 31, 2024, 6:36 p.m.