Authors: Reid I
Evaluating Programs for Predicting Genes and Transcripts with RNA-Seq Support in Fungal Genomes.
Methods Mol Biol. 2018;1775:209-227
Authors: Reid I
Abstract
The steps needed to computationally predict genes and transcripts in fungal genomes with support from RNA-Seq data are described in detail for three prediction programs: CodingQuarry, BRAKER1, and Harfang. These programs predicted from 86% to 92% (Harfang) of the genes in a manually curated reference set for Aspergillus niger strain NRRL3. Genes with little or no RNA-Seq read coverage were predicted less successfully than genes with adequate coverage.
PMID: 29876820 [PubMed - indexed for MEDLINE]
Keywords: Bioinformatics; Cleaning short sequence reads; Gene prediction; RNA-Seq; Transcript prediction;
PubMed: https://www.ncbi.nlm.nih.gov/pubmed/29876820?dopt=Abstract
DOI: 10.1007/978-1-4939-7804-5_17
