Stars
A hardware-aware guide to data structures for system software engineers.
"rsync for cloud storage" - Google Drive, S3, Dropbox, Backblaze B2, One Drive, Swift, Hubic, Wasabi, Google Cloud Storage, Azure Blob, Azure Files, Yandex Files
A small, auxiliary index to massively improve parallel fastq parsing
Benchmark data structures for kmer sets.
Amplicon sequencing variants from 16s ONT R10.4 / HiFi long reads
Transfer HiFi read mappings from their own assembly contigs to a standard reference
abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
A simple yet versatile context engineered for scalable online data collection
Make SVG figures out of the Burrows-Wheeler Matrix and various auxiliary text-space and BWT-space structures
pangenome alignment, implicit/explicit graph, and variants for human pangenome project release 2
Pipeline for processing and quality control of RNA-seq data
Slides for Algorithms for DNA Sequencing Coursera class
Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
Transformer-based sequence correction method for genome assembly polishing
Create web-based user interfaces with Python. The nice way.
Identify long STRs, VNTRs, satellite DNA and other low-complexity regions in a genome
An AI agent system for solving International Mathematical Olympiad (IMO) problems using Google's Gemini, OpenAI, and XAI APIs.
The interactive graphing library for Python ✨
A tool for semi-automatic cell type classification
KmerCamel🐫 provides implementations of several algorithms for efficiently representing a set of k-mers as a masked superstring.
Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop
Unleash MMseqs2’s power for your protein and nucleotide sequence analysis. Fast, simple, seamless!
Instantaneous Metagenome Taxonomic Profiling with MetaKSSD
vim plugin for DNA sequences and sequencing files (SAM/BAM, PAF, FA/FQ, etc.)
A new high-resolution long-read metagenome assembler for even noisy reads