jean-pierreBoth / gsearchLinks
Approximate nearest neighbour search for microbial genomes based on hash metric
☆57Updated last month
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.☆55Updated 6 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☆101Updated last month
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- Pan-Genomic Matching Statistics☆54Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 3 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆43Updated 7 months ago
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆43Updated 2 months ago
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆55Updated 3 weeks ago
- Split k-mer analysis – version 2☆96Updated 2 weeks ago
- Plasmid analysis using rearrangement distances☆46Updated last month
- Colinear block visualisation tool☆31Updated last year
- Fast and space-efficient taxonomic classification of long reads☆43Updated 2 months ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆25Updated this week
- Genomic neighbor typing of bacterial pathogens using MinHash☆43Updated 2 years ago
- Recombination-free trees☆60Updated 2 months ago
- Evaluating Nanopore-based bacterial variant calling☆20Updated 3 months ago
- Genome size estimation from long read overlaps☆62Updated last week
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- ♥ Fast and Accurate Estimation of Evolutionary Distances☆29Updated 6 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 7 months ago
- Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…☆45Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Efficient calculation of phylogenetic distance matrices.☆48Updated last year
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 5 months ago
- ☆30Updated 2 years ago
- tree visualization for tree + annotation data☆42Updated 4 months ago
- Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆47Updated 3 months ago
- Correcting errors in noisy long reads using variation graphs☆50Updated 2 years ago
- Python package to plot a phylogenetic tree on an existing matplotlib axis.☆26Updated 3 months ago