Track Hub Tools

Ensembl Database — EMBL-EBI's comprehensive genome annotation database covering 300+ species with gene models, variants, regulatory features, and comparative genomics. Query via REST API at rest.ensem

1 shared topic • 2 shared operations

gffread -- GFF/GTF utility for filtering, converting, and extracting sequences from genome annotation files. Converts between GFF3 and GTF formats, extracts transcript (FASTA) and protein sequences fr

1 shared topic • 2 shared operations

Liftoff — accurate genome annotation liftover tool that maps GFF/GTF annotations between assemblies of the same or closely-related species using Minimap2 alignment. Supports gene copy detection, ORF v

1 shared topic • 2 shared operations

MAKER — portable genome annotation pipeline that integrates ab initio gene predictors (SNAP, Augustus, GeneMark), protein and EST evidence alignment, and repeat masking to produce GFF3 gene models wit

1 shared topic • 2 shared operations

ncbi-genome-download is a Python CLI tool and library for bulk downloading genome sequences and associated files from NCBI RefSeq and GenBank FTP servers. Supports all taxonomic groups (bacteria, fung

1 shared topic • 2 shared operations