MMseqs2: ultra fast and sensitive search and clustering suite
Remote protein homology detection suite.
Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, enabling assessment of downstream analyses such as trees and predicted structures.
LexicMap: efficient sequence alignment against millions of prokaryotic genomes
MMseqs2 app to run on your workstation or servers
Grep for FASTQ files
The MPI Bioinformatics Toolkit
Kourami: Graph-guided assembly for HLA alleles
Time series & sequence processing in Python 🗠
Le deuxième travail pratique du cours de bio-informatique. Il s'agit d'une implémentation de PLAST, un algorithme heuristique proche de BLAST pour la recherche d'une séquence dans une base de données de nucléotides.
A framework for benchmarking sequence search tools
viterbi is a high-performance profile Hidden Markov Model (HMM) search and alignment engine written in pure Rust
Ferragina-Manzini (FM-index) exact pattern matching and substring counting over genomic sequence collections
Code and derived data comparing pooled, same-read-pair, same-read and exact-span k-mer support for fixed sorghum target sequences in public short reads (ENA PRJEB50066).
Deterministic Python MinHash/LSH sequence search with exact Jaccard reranking and time-directed similarity graphs.
Multi-search Java library
Production-grade genpark-smith-waterman-local-aligner-skill skill for AI agents
Base librarys for sequencing data analysis.
MMseqs2 MCP server for sequence search, clustering, and MSA generation
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