Top 11 C++ Genomic Projects

vg

2 1,060 9.4 C++

tools for working with genome variation graphs (by vgteam)
bwa-mem2

2 676 2.6 C++

The next version of bwa-mem
InfluxDB

www.influxdata.com sponsored

Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
bowtie2

2 618 7.6 C++

A fast and sensitive gapped read aligner

Project mention: NHI Genome Studies: Mexico Govt Sept 12 Congressional hearing | /r/genetics | 2023-09-14

2) Use bowtie2 to align reads against CHM13. This will let you separate human from nonhuman (important, as human sequences are a common contaminant in many nonhuman genomes).

Vcflib

0 595 2.6 C++

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

1 555 0.0 C++

Ultra-fast and memory-efficient (meta-)genome assembler
hap.py

2 392 0.0 C++

Haplotype VCF comparison tools
octopus

1 296 4.0 C++

Bayesian haplotype-based mutation calling (by luntergroup)
WorkOS

workos.com sponsored

The modern identity platform for B2B SaaS. The APIs are flexible and easy-to-use, supporting authentication, user identity, and complex enterprise features like SSO and SCIM provisioning.
bowtie

1 252 10.0 C++

An ultrafast memory-efficient short read aligner
amr

1 235 7.1 C++

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

1 152 3.4 C++

Genomics Extension for SQLite
TileDB-VCF

4 79 8.6 C++

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

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).