List of normalised read counts for Tasmanian devil transcriptomes

This dataset is a supplementary table for the following study: 'Identification of Expressed Endogenous Retroviral Element Associated Long Terminal Repeats in Devil Facial Tumour Cells'. The dataset contains normalised read counts, TPM, and log2-transformed TPM for all long terminal repeats (LTRs) and canonical genes from the Tasmanian devil's whole-genome sequence, mSarHar1.11. We generated the dataset by aligning RNA-seq datasets to mSarHar1.11 using STAR aligner for single-end and paired-end reads, according to the software manual. Technical replicates were combined using STAR. Subread featureCounts was used to obtain raw read counts. Normalisation was conducted using a non-linear full quantile normalisation method as part of EDAseq package. They were then converted to transcripts per kilobase million (TPM) and log2TPM using Scater.