Split Kmer Analysis
☆66May 26, 2022Updated 3 years ago
Alternatives and similar repositories for SKA
Users that are interested in SKA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆14Jan 20, 2016Updated 10 years ago
- Follow up to Grace Blackwell's 661k dataset, for 2023☆137Mar 19, 2026Updated last week
- Split k-mer analysis – version 2☆104Jan 29, 2026Updated last month
- Simple-to-use interactive comparison of two bacterial genomes☆26Jan 30, 2026Updated last month
- Recombination-free trees☆63Sep 1, 2025Updated 6 months ago
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆74Jul 31, 2025Updated 7 months ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆105Mar 2, 2026Updated 3 weeks ago
- A tool for removing redundant genomes from a set of assemblies☆79Sep 10, 2025Updated 6 months ago
- Library of sketching functions used by PopPUNK☆31Mar 31, 2025Updated 11 months ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆131Feb 26, 2024Updated 2 years ago
- Efficient and comprehensive metadata acquisition from the NCBI databases (includes SRA).☆50May 25, 2022Updated 3 years ago
- Bifrost graph gene caller.☆98Jan 20, 2026Updated 2 months ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- Rapid & standardized genome annotation using protein structural information☆43Mar 19, 2026Updated last week
- NordVPN Threat Protection Pro™ • AdTake your cybersecurity to the next level. Block phishing, malware, trackers, and ads. Lightweight app that works with all browsers.
- An SRA tool that takes as input local fastq file from a clinical infection sample, identifies and removes any significant human read, and…☆53Jul 24, 2025Updated 8 months ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- SEER, reimplemented in python 🐍🔮☆131Updated this week
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Feb 3, 2021Updated 5 years ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆215Aug 27, 2025Updated 7 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years ago
- Paint genomes with taxa-specific k-mer probabilities☆15Apr 4, 2022Updated 3 years ago
- in silico typing of the H. influenzae cap locus☆12Jul 15, 2024Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆97Dec 9, 2025Updated 3 months ago
- ☆15Jun 27, 2024Updated last year
- Reorients assembled microbial sequences☆136Aug 21, 2025Updated 7 months ago
- A set of scripts for calculating pairwise SNP distance☆45Feb 19, 2026Updated last month
- fast, multithreaded sourmash operations: search, compare, and gather.☆25Mar 16, 2026Updated last week
- Graph-based assembly phasing☆91Nov 25, 2025Updated 4 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆121May 21, 2024Updated last year
- Genome size estimation from long read overlaps☆81Mar 9, 2026Updated 2 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ♥ Efficient Estimation of Evolutionary Distances☆47Feb 15, 2026Updated last month
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆241Oct 12, 2025Updated 5 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆65Jun 16, 2025Updated 9 months ago
- Assemble bacterial isolate genomes from Nanopore reads☆129Jan 22, 2025Updated last year
- Archived - please see updated sccmec tool at link below☆13Aug 30, 2024Updated last year
- Viral genome coverage evaluation for metagenomic diagnostics☆27Aug 19, 2025Updated 7 months ago
- alignment to variation graph inducer☆158Mar 6, 2026Updated 2 weeks ago