Projects in Awesome Lists tagged with gff

https://github.com/nbisweden/agat

Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/

agat gff gff-format gtf perl-scripts standardisation toolkit

Last synced: 06 Jan 2026

https://github.com/NBISweden/AGAT

Another Gtf/Gff Analysis Toolkit

agat gff gff-format gtf perl-scripts standardisation toolkit

Last synced: 05 May 2025

https://github.com/moshi4/pyGenomeViz

A genome visualization python package for comparative genomics

bioinformatics comparative-genomics genbank genomics genomics-visualization gff gff3 matplotlib microbial-genomics microbiology python synteny visualization

Last synced: 18 Nov 2025

https://github.com/moshi4/pygenomeviz

A genome visualization python package for comparative genomics

bioinformatics comparative-genomics genbank genomics genomics-visualization gff gff3 matplotlib microbial-genomics microbiology python synteny visualization

Last synced: 15 May 2025

https://github.com/chrovis/cljam

A DNA Sequence Alignment/Map (SAM) library for Clojure

2bit bam bcf bed bigwig bioinformatics clojure cram fasta fastq genomics gff sam vcf wig

Last synced: 16 May 2025

https://github.com/telatin/bamtocov

🏔 coverage extraction from BAM/CRAM files, supporting targets 📊

alignment bam bed bioinformatics coverage gff ngs

Last synced: 30 Oct 2025

https://github.com/sbslee/fuc

Frequently used commands in bioinformatics

api bam bed bioinformatics cli cram fasta fastq gff gtf maf sam vcf visualization

Last synced: 06 Apr 2025

https://github.com/ginkgobioworks/edge

Efficiently keep track of changes to genomes

bioinformatics edge genome genome-annotation gff ncbi-blast prefix-tree primer

Last synced: 14 Oct 2025

https://github.com/alejandrogzi/gxf2bed

fastest GTF/GFF-to-BED converter chilling around

bed converter gene-annotation gff gtf high-performance

Last synced: 04 Jan 2026

https://github.com/zyxue/gtf2csv

Convert genome annotation GTF file into plain CSV format

annotation annotation-processing csv genomics gff gtf

Last synced: 07 May 2025

https://github.com/biomadeira/biodownloader

📦 A Command Line Tool for downloading protein structures, sequences and MSAs

bioinformatics cath cli fasta gff mmcif pdb pfam sifts

Last synced: 16 Jul 2025

https://github.com/alejandrogzi/noel

GTF/GFF per gene non-overlapping exon length calculator

exon gene-annotation gff gtf length non-overlapping

Last synced: 13 Oct 2025

https://github.com/yoannpa/gff3tobed

annotation-tool awk bed bioinformatics data-extraction gencode genome-annotation genomics gff gff3 hgnc

Last synced: 25 Oct 2025

https://github.com/nlesc/candygene

genome-annotation gff rdf rdflib

Last synced: 17 Jun 2025

https://github.com/mvinyard/gtfast

Lift annotations from a GTF file to an adata object.

anndata gencode genomics gff gtf python single-cell

Last synced: 28 Dec 2025

https://github.com/se7en69/bio-wrangler

Bio-Wrangler is a Python package for bioinformatics data wrangling. It helps load, filter, merge, and summarize bioinformatics datasets from formats like FASTA, FASTQ, VCF, and GFF.

bio-wrangler bioinformatics development fasta fastq gff python pythonpackage vcf wrangler

Last synced: 29 Jul 2025

https://github.com/SouthGreenPlatform/AgroLD_ETL

AgroLD is a RDF knowledge base that consists of data integrated from a variety of plant resources and ontologies. AgroLD ETL is the Python packages developed to transform plant datasets in RDF. Packages are developped for data standards such as GFF,GAF, VCF and specific plant databases.

etl gaf gff ontologies rdf rdf-data vcf