BUSCO

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

2 shared topics • 1 shared operation

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

2 shared topics • 1 shared operation

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

2 shared topics • 1 shared operation

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

2 shared topics • 1 shared operation

TransDecoder — identifies candidate coding regions within transcript sequences from de novo RNA-Seq assemblies. Provides TransDecoder.LongOrfs for extracting long open reading frames and TransDecoder.

2 shared topics • 1 shared operation