Linux kernel source tree

For developers, who are building real-time data-driven applications, Redis is the preferred, fastest, and most feature-rich cache, data structure server, and document and vector query engine.

Distribute and run LLMs with a single file.

Inference Llama 2 in one file of pure C

RNA-seq aligner

A versatile pairwise aligner for genomic and spliced nucleotide sequences

MMseqs2: ultra fast and sensitive search and clustering suite

Toolkit for processing sequences in FASTA/Q formats

Near-optimal RNA-Seq quantification

Sequence-to-graph mapper and graph generator

Align proteins to genomes with splicing and frameshift

Single-cell Transcriptome and Regulome Analysis Pipeline

Constructing a pangenome gene graph

UCSC command line bioinformatic utilities

Yet another Hi-C scaffolding tool

A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)

Tools to work with GWAS-VCF summary statistics files

Simple pileup-based variant caller

T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with bulk or single-cell RNA-seq, WGS or WES data.

A local-haplotagging-based small and structural variant caller

Identify long STRs, VNTRs, satellite DNA and other low-complexity regions in a genome

Scoring GT/AG sites for improving spliced alignment

1-code framework: docs, C-library, and tools

syncmer graphs, and perhaps other sorts of sequence graphs

ONEcode package to replace SAM/BAM, especially for eDNA mapping to everything

We have developed a novel method named LEGO (functional Link Enrichment of Gene Ontology or gene sets). Incorporating a network-based gene-weighting scheme, LEGO measures the overlaps between the i…

a regulatory potential c implementation for histone modification ChIP-seq and DNase-seq

A versatile pairwise aligner for genomic and spliced nucleotide sequences

This repo is for backup only. Please check the parent repo for details.