esteinig / sketchyLinks
Genomic neighbor typing of bacterial pathogens using MinHash
☆43Updated 2 years ago
Alternatives and similar repositories for sketchy
Users that are interested in sketchy are comparing it to the libraries listed below
Sorting:
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆33Updated last week
- Strain-level haplotyping for metagenomes with short or long-reads.☆59Updated 8 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- Colinear block visualisation tool☆31Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Remove human reads from a sequencing run☆45Updated last week
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Updated 9 months ago
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 3 months ago
- Output FASTQ summary statistics in JSON format☆29Updated 3 years ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- Automated strain separation of low-complexity metagenomes☆53Updated 4 years ago
- ☆14Updated 4 years ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- Genome size estimation from long read overlaps☆74Updated last week
- software to identify primers that can distinguish genomes☆20Updated 2 weeks ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆25Updated last week
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆12Updated last year
- Recombination-free trees☆62Updated 3 months ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆33Updated 3 weeks ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 4 months ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆31Updated last week
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Fast viral consensus genome reconstruction☆25Updated 5 months ago
- Plasmid analysis using rearrangement distances☆48Updated 3 months ago
- ☆44Updated 4 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 6 years ago
- Intra-species bacterial contamination detection☆25Updated 10 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 2 years ago