jean-pierreBoth / gsearchLinks
Approximate nearest neighbour search for microbial genomes based on hash metric
☆56Updated 3 weeks ago
Alternatives and similar repositories for gsearch
Users that are interested in gsearch are comparing it to the libraries listed below
Sorting:
- Strain-level haplotyping for metagenomes with short or long-reads.☆53Updated 4 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆79Updated last month
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆37Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated last month
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 2 months ago
- Split k-mer analysis – version 2☆88Updated last month
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆41Updated 5 months ago
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆47Updated last month
- Fast and space-efficient taxonomic classification of long reads☆43Updated last week
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated this week
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆41Updated last week
- Recombination-free trees☆59Updated 5 months ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆23Updated this week
- Genome size estimation from long read overlaps☆59Updated this week
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆52Updated last week
- Colinear block visualisation tool☆31Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Strain Resolution ON Graphs☆48Updated 2 years ago
- Pan-Genomic Matching Statistics☆53Updated last year
- Evaluating Nanopore-based bacterial variant calling☆19Updated last month
- Plasmid analysis using rearrangement distances☆45Updated 3 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆44Updated 2 years ago
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.☆26Updated 2 weeks ago
- Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.☆64Updated 2 weeks ago
- Drug Resistance Prediction with Reference Graphs☆22Updated 2 years ago
- ☆31Updated last year
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 5 months ago
- strain-level analysis tools☆39Updated 10 months ago
- ♥ Fast and Accurate Estimation of Evolutionary Distances☆29Updated 4 months ago