JensUweUlrich / TaxorLinks
Fast and space-efficient taxonomic classification of long reads
☆43Updated 4 months ago
Alternatives and similar repositories for Taxor
Users that are interested in Taxor are comparing it to the libraries listed below
Sorting:
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 8 months ago
- Automated strain separation of low-complexity metagenomes☆53Updated 4 years ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆43Updated 8 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Microbial agile accurate SNP Typer☆30Updated 2 years ago
- Recombination-free trees☆64Updated 4 months ago
- Plasmid analysis using rearrangement distances☆49Updated 3 months ago
- Colinear block visualisation tool☆31Updated last year
- Remove human reads from a sequencing run☆46Updated 2 weeks ago
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆45Updated 4 months ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆35Updated last month
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 2 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 5 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 5 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Updated 9 months ago
- Intra-species bacterial contamination detection☆25Updated 10 months ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- strain-level analysis tools☆39Updated last year
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆48Updated last week
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 6 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets☆25Updated 5 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 5 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆34Updated last week
- frame-shift correction for long-read (meta)genomics☆33Updated 2 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆60Updated last week
- Split Kmer Analysis☆66Updated 3 years ago