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The Top 23 Bioinformatics Variant Calling Open Source Projects

Open source projects categorized as Bioinformatics Variant Calling
Categories > Data Processing > Bioinformatics
Categories > Variant Calling
Jcvi ⭐ 650
Python library to facilitate genome assembly, annotation, and comparative genomics
dependent packages 1total releases 97most recent commit 4 months agopypi jcvi} 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
Octopus ⭐ 285
Bayesian haplotype-based mutation calling
most recent commit 8 months ago
Clairvoyante ⭐ 142
Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing
most recent commit 3 years ago
Fermikit ⭐ 91
De novo assembly based variant calling pipeline for Illumina short reads
most recent commit 3 years ago
Gramtools ⭐ 90
Genome inference from a population reference graph
most recent commit a year ago
Ilus ⭐ 89
A handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysis. 一个简易且全面的 WGS/WES 分析流程生成器.
total releases 13most recent commit 4 months ago
Genomicsdb ⭐ 88
High performance data storage for importing, querying and transforming variants.
dependent packages 2total releases 35most recent commit 3 months ago
Mccortex ⭐ 86
De novo genome assembly and multisample variant calling
most recent commit 5 years ago
Tiledb Vcf ⭐ 79
Efficient variant-call data storage and retrieval library using the TileDB storage library.
most recent commit 3 months ago
Callings Nf ⭐ 76
GATK RNA-Seq Variant Calling in Nextflow
most recent commit 3 years ago
Dysgu ⭐ 75
Toolkit for calling structural variants using short or long reads
total releases 27most recent commit 6 months ago
Clair ⭐ 74
Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling
most recent commit 3 years ago
Vcfdist ⭐ 48
vcfdist: Accurately benchmarking phased variant calls
most recent commit 3 months ago
Balsamic ⭐ 40
Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
most recent commit 3 months ago
Ococo ⭐ 39
Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
most recent commit 5 years ago
Chm Eval ⭐ 37
most recent commit 4 years ago
Popdel ⭐ 32
Population-wide Deletion Calling
most recent commit a year ago
Gatk4_best_practice ⭐ 18
GATK4 Best Practice Nextflow Pipeline
most recent commit 6 years ago
Clairs To ⭐ 18
ClairS-TO - a deep-learning method for tumor-only somatic SNV calling
most recent commit 3 months ago
Clair3 Trio ⭐ 12
Clair3-Trio: variant calling in trio using Nanopore long-reads
most recent commit 6 months ago
Workshop Ngsintro ⭐ 12
Workshop • Intro to Bioinformatics using NGS data • 5 days
most recent commit 3 months ago
The 2 Most Depended On Bioinformatics Variant Calling Open Source Projects
Genomicsdb ⭐ 88
High performance data storage for importing, querying and transforming variants.
dependent packages 2total releases 35latest release October 12, 2023most recent commit 3 months ago
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 6 Latest Releases In Bioinformatics Variant Calling Open Source Projects
Dysgu ⭐ 75
Toolkit for calling structural variants using short or long reads
total releases 27latest release October 18, 2023most recent commit 6 months ago
Genomicsdb ⭐ 88
High performance data storage for importing, querying and transforming variants.
dependent packages 2total releases 35latest release October 12, 2023most recent commit 3 months ago
Tbpore ⭐ 9
Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data
total releases 11latest release October 11, 2023most recent commit 6 months ago
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
Snipgenie ⭐ 6
command line and desktop tool for microbial variant calling
total releases 2latest release November 01, 2021most recent commit 4 months ago
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