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The Top 23 Python Genome Genomics Open Source Projects

Open source projects categorized as Python 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
Hail ⭐ 905
Cloud-native genomic dataframes and batch computing
dependent packages 17total releases 146most recent commit 3 months agopypi hail} Downloads
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
Genometools ⭐ 261
GenomeTools genome analysis system.
most recent commit 6 months 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
Circlator ⭐ 193
A tool to circularize genome assemblies
total releases 33most recent commit 8 months ago
Viral Ngs ⭐ 129
Viral genomics analysis pipelines
most recent commit 4 years ago
Toga ⭐ 120
TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.
most recent commit 3 months ago
Mgatk ⭐ 89
mgatk: mitochondrial genome analysis toolkit
total releases 20most recent commit 3 months ago
Hgtector ⭐ 87
HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
most recent commit 7 months ago
Gnomad_methods ⭐ 80
Hail helper functions for the gnomAD project and Translational Genomics Group
dependent packages 1total releases 35most recent commit 3 months agopypi cpg-gnomad} Downloads
Wgd ⭐ 74
Python package and CLI for whole-genome duplication related analyses
most recent commit 6 months ago
Dna Traits ⭐ 64
A fast 23andMe genome text file parser, now superseded by arv
most recent commit 6 years ago
Catch ⭐ 63
A package for designing compact and comprehensive capture probe sets.
most recent commit 6 months ago
Phanotate ⭐ 58
PHANOTATE: a tool to annotate phage genomes.
total releases 12most recent commit 6 months ago
Helen ⭐ 52
H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
total releases 19most recent commit 3 years ago
Genomegtftools ⭐ 52
convert various features into a GFF-like file for use in genome browsers
most recent commit 5 months ago
Quota Alignment ⭐ 44
Guided synteny alignment between duplicated genomes (within specified quota constraint)
most recent commit 7 years ago
Jgi Query ⭐ 40
A simple command-line tool to download data from Joint Genome Institute databases
most recent commit 2 years ago
Biopython Coronavirus ⭐ 39
Biopython Jupyter Notebook tutorial to characterize a small genome
most recent commit 4 years ago
Grocsvs ⭐ 32
Genome-wide reconstruction of complex structural variants
most recent commit 4 years ago
The 7 Most Depended On Python 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
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
G3d ⭐ 9
Genomics 3D Visualizer
dependent packages 2total releases 9latest release August 10, 2020most recent commit 2 years agonpm g3djs} Downloads
Gnomad_methods ⭐ 80
Hail helper functions for the gnomAD project and Translational Genomics Group
dependent packages 1total releases 35latest release August 16, 2022most recent commit 3 months agopypi cpg-gnomad} 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 Python 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
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
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
Gnomad_methods ⭐ 80
Hail helper functions for the gnomAD project and Translational Genomics Group
dependent packages 1total releases 35latest release August 16, 2022most recent commit 3 months agopypi cpg-gnomad} Downloads
Pygenprop ⭐ 9
A python library for programmatic usage of EBI InterPro Genome Properties.
total releases 5latest release January 19, 2022most recent commit a year ago
Pygeno ⭐ 242
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
total releases 18latest release December 15, 2021most recent commit 4 years ago
Soda ⭐ 12
Python-based UCSC genome browser snapshot-taker and gallery-maker
total releases 2latest release June 14, 2021most recent commit 3 years ago
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