MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics

Same species annotation lift over pipeline.

GeneValidator: Identify problems with predicted genes

Genome Annotation for the Masses

Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.

Nextflow pipeline for genome annotation of protein-coding genes

iPat allows you to perform GWAS and GS with drags and clicks!

Python3 wrapper for parallelized gene prediction using Prodigal

Gene Prediction using MAKER, CEGMA, SNAP, GENEMARK & AUGUSTUS

scripts associated with yam genome assembly

Scalable high-throughput short-read open reading frame prediction

Deep learning based method called hist2RNA to predict the expression of genes using digital images of stained tissue samples

The AugusMake pipeline is a Snakemake-based workflow for generating gene annotations using the Augustus software. AugusMake can perform gene predictions using any combination of the three methods: ab initio, with extrinsic hints, or by training a new species.

Scans fasta sequences for putative viruses - uses prokka, blast, and hhpred to predict ORFs and gene products

Prediction of genes in genomes with ambiguous stop codons

ncRNA identification, annotation and functional prediction

Create a SNAP model from BUSCO output

Practical and home works in the discipline Bioinformatics.

Comprehensive genome annotation pipeline for plant combining EVM/PASA, GETA, AUGUSTUS and Helixer with semi-supervised filtering for high-quality gene models.

Cpp Programs for feature extraction