guigolab/genome-annotation-tracker

Tracks Eukaryotic genome annotations (gff) from NCBI and Ensembl

Size: 21.8 MB - Last synced at: 7 days ago - Pushed at: 7 days ago - Stars: 0 - Forks: 0

alejandrogzi/bed2gff

cool BED-to-GFF3 converter that runs in parallel

Language: Rust - Size: 110 KB - Last synced at: 10 days ago - Pushed at: 11 days ago - Stars: 9 - Forks: 2

moshi4/pyGenomeViz

A genome visualization python package for comparative genomics

Language: Python - Size: 76.2 MB - Last synced at: 8 days ago - Pushed at: 9 days ago - Stars: 319 - Forks: 21

IPK-BIT/divbrowse

A web application for interactive visualization and exploratory data analysis of variant call matrices

Language: Svelte - Size: 2.6 MB - Last synced at: 17 days ago - Pushed at: almost 2 years ago - Stars: 19 - Forks: 3

NAL-i5K/GFF3toolkit

Python programs for processing GFF3 files

Language: Python - Size: 31.9 MB - Last synced at: 11 days ago - Pushed at: about 1 year ago - Stars: 95 - Forks: 27

BioJulia/GenomicAnnotations.jl

Language: Julia - Size: 5.03 MB - Last synced at: 8 days ago - Pushed at: about 2 months ago - Stars: 16 - Forks: 4

dwpeng/filterx

process any file in tabular format. Fasta/fastq/GTF/GFF/VCF/SAM/BED

Language: Rust - Size: 503 KB - Last synced at: 18 days ago - Pushed at: 2 months ago - Stars: 22 - Forks: 0

genometools/genometools

GenomeTools genome analysis system.

Language: C - Size: 53.1 MB - Last synced at: about 2 months ago - Pushed at: about 1 year ago - Stars: 300 - Forks: 65

vejnar/FONtools

JSON-based FON (Feature Object Notation) format and tools to simplify genomic annotations usage

Language: Python - Size: 270 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 13 - Forks: 1

IBCHgenomic/phytozome-pacid-fetcher

analyzer for phytozome gff files and pacid for genes.

Language: Python - Size: 7.44 MB - Last synced at: about 2 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

tao-bioinfo/gff3sort

GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools

Language: Perl - Size: 43.9 KB - Last synced at: about 2 months ago - Pushed at: almost 5 years ago - Stars: 48 - Forks: 19

BioJulia/GFF3.jl

Language: Julia - Size: 425 KB - Last synced at: 3 days ago - Pushed at: about 1 year ago - Stars: 13 - Forks: 5

tjparnell/biotoolbox

Tools for querying and analysis of genomic data

Language: Perl - Size: 8.02 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 27 - Forks: 16

NBISweden/EMBLmyGFF3

An efficient way to convert gff3 annotation files into EMBL format ready to submit.

Language: Python - Size: 31.2 MB - Last synced at: 20 days ago - Pushed at: about 1 year ago - Stars: 59 - Forks: 15

mcamagna/GFF2DDBJ

This tool will convert GFF3 files into DDBJ annotation files. It was created to work with Braker2 generated GFF files, but should work with any other GFF3 file as well.

Language: Python - Size: 135 KB - Last synced at: 16 days ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

BioInterchange/Ontologies

Home of the Genomic Feature and Variation Ontology (GFVO)

Language: Ruby - Size: 738 KB - Last synced at: about 1 year ago - Pushed at: about 4 years ago - Stars: 16 - Forks: 4

BioInterchange/BioInterchangeC

Genomic linked data converter. Interchange GFF, GVF, VCF files via JSON.

Language: C - Size: 14.5 MB - Last synced at: about 1 year ago - Pushed at: almost 4 years ago - Stars: 2 - Forks: 1

dmyersturnbull/bioio Fork of PharmGKB/genome-sequence-io

Micro-libraries for reading and writing genomic sequence data in various formats.

Language: Java - Size: 690 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 3 - Forks: 0

scbirlab/bioino

💻 Interconverting FASTA, GFF, and CSV.

Language: Python - Size: 1.81 MB - Last synced at: 25 days ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

DarisCappelletti/Gff3-tools

C# web tool for reading GFF3 files, filtering, ordering, extracting information into Excel, GFF3 files, CDS files, and comparing GFF3 data with FASTA and CDS files.

Language: ASP.NET - Size: 1.95 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 0

bingbig/gtf2gff3

Convert gtf to gff3 for JBrowse

Language: Python - Size: 2.93 KB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 1

fmalmeida/gff-toolbox

Gff-toolbox is a toolbox of commands that enables one to get the gist of their GFF annotation files, as well as to analyse them in different ways.

Language: Python - Size: 77.9 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 6 - Forks: 1

kcajj/human_genome_webapp

final project of the advanced programming classes, course of Genomics bachelor degree - UniBo.

Language: HTML - Size: 37 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

YoannPa/Gff3ToBed

Language: Shell - Size: 22.5 KB - Last synced at: almost 2 years ago - Pushed at: about 6 years ago - Stars: 4 - Forks: 3

standage/tag

Genome annotation data analysis and management implemented in pure Python

Language: Python - Size: 1.57 MB - Last synced at: almost 2 years ago - Pushed at: over 4 years ago - Stars: 8 - Forks: 1

pguenzi-tiberi/script_trinotate_to_gff

A little script to print a gff3 file

Language: Python - Size: 59.6 KB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

AxelGiottonini/EMBLish 📦

EMBLish aims to provide a tool for converting gene prediction files such as Maker output file and gene annotation files such as Pannzer2 output file into the EMBL format

Language: Python - Size: 4.78 MB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

hernanmd/hisat2_bovine

Scripts to index and align Bovine genome with HISAT2

Language: Shell - Size: 13.3 MB - Last synced at: 2 months ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 1

jacobbierstedt/gfftobed

Convert GFF3/GTF to BED

Language: C++ - Size: 55.7 KB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 5 - Forks: 2

guokai8/gff2gene

Plot gene structure

Language: R - Size: 37.1 KB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 4 - Forks: 0

erkinacar5/SortedNucleotideCounter

This code counts the mapped nucleotide number in given SAM file according to given GFF file.

Language: Java - Size: 6.84 KB - Last synced at: about 1 year ago - Pushed at: almost 8 years ago - Stars: 1 - Forks: 0

DarisCappelletti/Gff3-reader

Programma per il caricamento ed analisi di file in formato .gff3

Language: ASP.NET - Size: 11.5 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

NAL-i5K/AgBioData_GFF3_recommendation

The AgBioData GFF3 working group has developed recommendations to solve common problems in the GFF3 format. We suggest improvements for each of the GFF3 fields, as well as the special cases of modeling functional annotations, and standard protein-coding genes. We welcome discussion of these recommendations from the larger community.

Size: 573 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 5 - Forks: 4

jakechamblee/BPROM_to_GFF3_converter

Converts the string output of BPROM, a promoter prediction software tool, to the GFF3 file format. Used in a CPT Galaxy phage genomics workflow

Language: Python - Size: 91.8 KB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

biosustain/goodbye-genbank

A Python package for Biopython that gives feature annotations from GenBank records a new and better life

Language: Python - Size: 284 KB - Last synced at: 16 days ago - Pushed at: about 9 years ago - Stars: 14 - Forks: 3

holmrenser/gff_toolkit

tools for handling gff files

Language: Python - Size: 66.4 KB - Last synced at: 3 days ago - Pushed at: over 8 years ago - Stars: 1 - Forks: 1

Grelot/vcfsynonymous

read VCF and select synonymous or non-synonymous coding variants

Language: Python - Size: 51.8 KB - Last synced at: 15 days ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

NCBI-Hackathons/Master_gff3_parser

Convert sequence IDs between ucsc/refseq/genbank

Language: Python - Size: 1.12 MB - Last synced at: 12 months ago - Pushed at: over 6 years ago - Stars: 16 - Forks: 5

brettwhitty/bw-msu-tools

Archive of personal scripts repository from my various projects in the Buell Lab at MSU (Jan. 2008 - Apr. 2011)

Language: Perl - Size: 3.76 MB - Last synced at: almost 2 years ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

COMBAT-TB/tb2neo

A tool to aggregate and load TB data to Neo4j

Language: Python - Size: 6.94 MB - Last synced at: 2 months ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

kblin/fungal-ui

A web UI for the fungal version of antiSMASH.

Language: JavaScript - Size: 540 KB - Last synced at: 18 days ago - Pushed at: about 6 years ago - Stars: 0 - Forks: 0

hassanfa/GFFtoolkit

Extracts information from GFF and prepare them in bed format

Language: Shell - Size: 1.06 MB - Last synced at: about 2 years ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 1

corwur/gfftoneo4j

Tools for importing GFF files to a Neo4J graph database

Language: Scala - Size: 6.67 MB - Last synced at: almost 2 years ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 0

holmrenser/genome_annotation_toolkit

Toolkit for handling genome annotations in various formats. Python3.

Language: Python - Size: 15.6 KB - Last synced at: about 1 month ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0