Table of Contents

tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences.- Predicting RNA Families In Nucleotides Sequences Using StructRNAfinder.- Structural and Functional Annotation of Eukaryotic Genomes with GenSAS.- Practical Guide for Fungal Gene Prediction from Genome Assembly and RNA-seq Reads by FunGAP.- Whole-Genome Annotation with BRAKER.- EuGene: An Automated Integrative Gene Finder for Eukaryotes and Prokaryotes.- ChemGenome2.1: An ab initio Gene Prediction Software.- Multi-Genome Annotation with AUGUSTUS.- GeMoMa: Homology-Based Gene Prediction Utilizing Intron Position Conservation and RNA-seq Data.- Coding Exon-Structure Aware Realigner (CESAR): Utilizing Genome Alignments for Comparative Gene Annotation.- Predicting Genes in Closely Related Species with Scipio and WebScipio.- AnABlast, Re-Searching for Protein-Coding Sequences in Genomic Regions.- Generating Publication-Ready Prokaryotic Genome Annotations with DFAST.- BUSCO: Assessing Genome Assembly and Annotation Completeness.- Evaluating Genome Assemblies and Gene Models using gVolante.- Choosing the Best Gene Predictions with GeneValidator.- COGNATE: Comparative Gene Annotation Characterizer.