C++ Genomics

Open-source C++ projects categorized as Genomics
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Bioinformatics variant-calling Vcf Python C++
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Top 12 C++ Genomic Projects

Genomics

  1. vg

    tools for working with genome variation graphs (by vgteam)

  2. InfluxDB

    InfluxDB – Built for High-Performance Time Series Workloads. InfluxDB 3 OSS is now GA. Transform, enrich, and act on time series data directly in the database. Automate critical tasks and eliminate the need to move data externally. Download now.

    InfluxDB logo

  3. bwa-mem2

    The next version of bwa-mem

  4. bowtie2

    A fast and sensitive gapped read aligner

  5. Vcflib

    C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings

  6. megahit

    Ultra-fast and memory-efficient (meta-)genome assembler

  7. hap.py

    Haplotype VCF comparison tools

  8. amr

    AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.

  9. Stream

    Stream - Scalable APIs for Chat, Feeds, Moderation, & Video. Stream helps developers build engaging apps that scale to millions with performant and flexible Chat, Feeds, Moderation, and Video APIs and SDKs powered by a global edge network and enterprise-grade infrastructure.

    Stream logo

  10. octopus

    Bayesian haplotype-based mutation calling (by luntergroup)

  11. bowtie

    An ultrafast memory-efficient short read aligner

  12. GenomicSQLite

    Genomics Extension for SQLite

  13. TileDB-VCF

    Efficient variant-call data storage and retrieval library using the TileDB storage library.

  14. cryfa

    A secure encryption tool for genomic data

    Project mention: Cryfa: A secure encryption tool for genomic data | news.ycombinator.com | 2025-03-31
NOTE: The open source projects on this list are ordered by number of github stars. The number of mentions indicates repo mentiontions in the last 12 Months or since we started tracking (Dec 2020).

C++ Genomics discussion

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C++ Genomics related posts

  • NHI Genome Studies: Mexico Govt Sept 12 Congressional hearing

    4 projects | /r/genetics | 14 Sep 2023

  • Help running hap.py

    1 project | /r/bioinformatics | 22 Nov 2022

  • Has anyone stored/queried VCFs and their variant records in a relational database?

    2 projects | /r/bioinformatics | 12 Nov 2022

  • Anyone use DRAGEN-GATK?

    1 project | /r/bioinformatics | 12 Oct 2022

  • VG v1.36.0 just released!

    1 project | /r/UCSC | 11 Nov 2021

  • [TileDB webinar] Population genomics is a data management problem

    3 projects | /r/bioinformatics | 20 Oct 2021

  • Bioinformatics programming language

    1 project | /r/u_waynerad | 18 Oct 2021
  • A note from our sponsor - InfluxDB
    www.influxdata.com | 17 Jul 2025
    InfluxDB 3 OSS is now GA. Transform, enrich, and act on time series data directly in the database. Automate critical tasks and eliminate the need to move data externally. Download now. Learn more →

Index

What are some of the best open-source Genomic projects in C++? This list will help you:

# Project Stars
1 vg 1,217
2 bwa-mem2 767
3 bowtie2 724
4 Vcflib 649
5 megahit 649
6 hap.py 432
7 amr 315
8 octopus 313
9 bowtie 261
10 GenomicSQLite 164
11 TileDB-VCF 95
12 cryfa 62

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InfluxDB 3 OSS is now GA. Transform, enrich, and act on time series data directly in the database. Automate critical tasks and eliminate the need to move data externally. Download now.
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