LLM inference in C/C++

Distribute and run LLMs with a single file.

A fast and sensitive gapped read aligner

hybrid assembly pipeline for bacterial genomes

Graph-based alignment (Hierarchical Graph FM index)

Mummer alignment tool

Transcript assembly and quantification for RNA-Seq

Automatically exported from code.google.com/p/sse2neon

An ultrafast memory-efficient short read aligner

de novo sequence assembler using string graphs

DRAGEN open-source mapper

Assembled Genomes Compressor

C++ htslib/bwa-mem/fermi interface for interrogating sequence data

MECAT: an ultra-fast mapping, error correction and de novo assembly tool for single-molecule sequencing reads

Genome inference from a population reference graph

MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.

Genome mapping and spliced alignment of cDNA or amino acid sequences

PBSIM2: a simulator for long read sequencers with a novel generative model of quality scores

The Modular Aligner and The Modular SV Caller

A coalescent simulator for genome-scale sequences

Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.

Efficient construction of the BWT using string compression.

Benchmark on difference algorithm