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The Top 23 Genome Genomics Open Source Projects

Open source projects categorized as Genome Genomics
Categories > Science > Genome
Categories > Science > Genomics
Deepvariant ⭐ 2,978
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
most recent commit 5 months ago
Gatk ⭐ 1,576
Official code repository for GATK versions 4 and up
dependent packages 2total releases 46most recent commit a month ago
Vg ⭐ 1,022
tools for working with genome variation graphs
most recent commit 3 months ago
Hail ⭐ 905
Cloud-native genomic dataframes and batch computing
dependent packages 17total releases 146most recent commit 3 months agopypi hail} Downloads
Applied Computational Genomics ⭐ 887
Applied Computational Genomics Course at UU: Spring 2020
most recent commit 3 months ago
Ncbi Genome Download ⭐ 784
Scripts to download genomes from the NCBI FTP servers
dependent packages 6total releases 25most recent commit 9 months agopypi ncbi-genome-download} Downloads
Jcvi ⭐ 650
Python library to facilitate genome assembly, annotation, and comparative genomics
dependent packages 1total releases 97most recent commit 4 months agopypi jcvi} Downloads
Bowtie2 ⭐ 594
A fast and sensitive gapped read aligner
most recent commit 3 months ago
Hifiasm ⭐ 443
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
most recent commit 3 months ago
Megahit ⭐ 442
Ultra-fast and memory-efficient (meta-)genome assembler
most recent commit a year ago
Jbrowse ⭐ 437
Full-featured and stable genome browser built with JavaScript and HTML5.
dependent packages 2total releases 30most recent commit a year agonpm @gmod/jbrowse} Downloads
Snippy ⭐ 408
✂️ ⚡ Rapid haploid variant calling and core genome alignment
most recent commit 6 months ago
Sarek ⭐ 299
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
most recent commit 3 months ago
Hap.py ⭐ 283
Haplotype VCF comparison tools
most recent commit 2 years ago
Ideogram ⭐ 265
Chromosome visualization for the web
dependent packages 8total releases 76most recent commit 3 months agonpm ideogram} Downloads
Genometools ⭐ 261
GenomeTools genome analysis system.
most recent commit 6 months ago
Ribbon ⭐ 249
A genome browser that shows long reads and complex variants better
most recent commit a year ago
Pygeno ⭐ 242
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
total releases 18most recent commit 4 years ago
Hgvs ⭐ 226
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
dependent packages 12total releases 104most recent commit 3 months agopypi hgvs} Downloads
Roary ⭐ 219
Rapid large-scale prokaryote pan genome analysis
total releases 83most recent commit 2 years ago
Smudgeplot ⭐ 200
Inference of ploidy and heterozygosity structure using whole genome sequencing data
most recent commit 3 months ago
Biomartr ⭐ 198
Genomic Data Retrieval with R
dependent packages 3total releases 21most recent commit 5 months ago
Circlator ⭐ 193
A tool to circularize genome assemblies
total releases 33most recent commit 8 months ago
The 10 Most Depended On Genome Genomics Open Source Projects
Hail ⭐ 905
Cloud-native genomic dataframes and batch computing
dependent packages 17total releases 146latest release October 30, 2023most recent commit 3 months agopypi hail} Downloads
Hgvs ⭐ 226
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
dependent packages 12total releases 104latest release November 21, 2022most recent commit 3 months agopypi hgvs} Downloads
Ideogram ⭐ 265
Chromosome visualization for the web
dependent packages 8total releases 76latest release September 05, 2023most recent commit 3 months agonpm ideogram} Downloads
Ncbi Genome Download ⭐ 784
Scripts to download genomes from the NCBI FTP servers
dependent packages 6total releases 25latest release July 28, 2023most recent commit 9 months agopypi ncbi-genome-download} Downloads
Biomartr ⭐ 198
Genomic Data Retrieval with R
dependent packages 3total releases 21latest release December 02, 2023most recent commit 5 months ago
Gatk ⭐ 1,576
Official code repository for GATK versions 4 and up
dependent packages 2total releases 46latest release March 16, 2023most recent commit a month ago
G3d ⭐ 9
Genomics 3D Visualizer
dependent packages 2total releases 9latest release August 10, 2020most recent commit 2 years agonpm g3djs} Downloads
Jbrowse ⭐ 437
Full-featured and stable genome browser built with JavaScript and HTML5.
dependent packages 2total releases 30latest release July 12, 2019most recent commit a year agonpm @gmod/jbrowse} Downloads
Jcvi ⭐ 650
Python library to facilitate genome assembly, annotation, and comparative genomics
dependent packages 1total releases 97latest release August 30, 2023most recent commit 4 months agopypi jcvi} Downloads
The 10 Latest Releases In Genome Genomics Open Source Projects
Biomartr ⭐ 198
Genomic Data Retrieval with R
dependent packages 3total releases 21latest release December 02, 2023most recent commit 5 months ago
Genomehubs ⭐ 12
Search and explore genomic metadata, Earth BioGenome Project progress and assembly features
total releases 128latest release November 09, 2023most recent commit 4 months ago
Hail ⭐ 905
Cloud-native genomic dataframes and batch computing
dependent packages 17total releases 146latest release October 30, 2023most recent commit 3 months agopypi hail} Downloads
Ideogram ⭐ 265
Chromosome visualization for the web
dependent packages 8total releases 76latest release September 05, 2023most recent commit 3 months agonpm ideogram} Downloads
Jcvi ⭐ 650
Python library to facilitate genome assembly, annotation, and comparative genomics
dependent packages 1total releases 97latest release August 30, 2023most recent commit 4 months agopypi jcvi} Downloads
Ncbi Genome Download ⭐ 784
Scripts to download genomes from the NCBI FTP servers
dependent packages 6total releases 25latest release July 28, 2023most recent commit 9 months agopypi ncbi-genome-download} Downloads
Gatk ⭐ 1,576
Official code repository for GATK versions 4 and up
dependent packages 2total releases 46latest release March 16, 2023most recent commit a month ago
Mgatk ⭐ 89
mgatk: mitochondrial genome analysis toolkit
total releases 20latest release January 15, 2023most recent commit 3 months ago
Hgvs ⭐ 226
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
dependent packages 12total releases 104latest release November 21, 2022most recent commit 3 months agopypi hgvs} Downloads
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