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

Tools for early stage alignment file processing

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

Benchmarking matrix multiplication implementations