๐งฎ ๐ข Generate multi-sample k-mer count matrix from WGS
โ11Jan 17, 2026Updated 6 months ago
Alternatives and similar repositories for kounta
Users that are interested in kounta are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A transposition caller.โ12Oct 5, 2023Updated 2 years ago
- pipeline for read mapping, snp calling and annotation for bacterial genomesโ13Mar 12, 2024Updated 2 years ago
- Plasmid and antimicrobial resistance pipelineโ16Apr 30, 2026Updated 3 months ago
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)โ22Nov 24, 2024Updated last year
- Miscellaneous Perl scripts from 20 years in microbial bioinformaticsโ18Jul 16, 2024Updated 2 years ago
- End-to-end encrypted cloud storage - Proton Drive โข AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Using reference-free compressed data structures to analyse thousands of human genomes (1000 Genomes ReadServer)โ14Sep 23, 2017Updated 8 years ago
- transposable element typing pipelineโ19Mar 8, 2024Updated 2 years ago
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.โ20Updated this week
- Uses cDBG to count unitigs in bacterial populationsโ18Feb 15, 2023Updated 3 years ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigationsโ26Aug 26, 2024Updated last year
- Photonic and metamaterials calculationsโ13Updated this week
- Percentile-normalization method for correcting batch effects in case-control studiesโ12Oct 26, 2019Updated 6 years ago
- โ20Jan 23, 2019Updated 7 years ago
- Perl 5 Scientist - Test new code against oldโ10Mar 19, 2025Updated last year
- GPUs on demand by Runpod - Special Offer Available โข AdRun AI, ML, and HPC workloads on powerful cloud GPUsโwithout limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Pipeline for analysing intergenic regions in bacteriaโ39Oct 25, 2019Updated 6 years ago
- Create a tree using Mash distancesโ189Oct 24, 2023Updated 2 years ago
- โ22Apr 2, 2015Updated 11 years ago
- a simple C++ library for parsing and manipulating VCF files, + many command-line utilitiesโ20Mar 22, 2017Updated 9 years ago
- Next-generation sequencing analysis pipelines & scripsโ10Nov 25, 2020Updated 5 years ago
- PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbesโ26Dec 4, 2023Updated 2 years ago
- A curated database of completed assemblies with taxonomy IDsโ53Jun 7, 2026Updated 2 months ago
- โ23Apr 3, 2023Updated 3 years ago
- Biological file format specimens for testing packages, and functions to assist in testing.โ16Nov 18, 2025Updated 8 months ago
- Deploy on Railway without the complexity - Free Credits Offer โข AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Get microbial sequence data easier and fasterโ29Nov 7, 2019Updated 6 years ago
- Generate interactive dotplot from mummer4 output using plotlyโ27Feb 29, 2020Updated 6 years ago
- โ14Sep 5, 2025Updated 11 months ago
- ProphAsm โ a rapid computation of simplitigs directly from k-mer setsโ25Feb 17, 2023Updated 3 years ago
- Salmonella serotyping from genome sequencing dataโ11Sep 3, 2018Updated 7 years ago
- Space-efficient pseudoalignment with a colored de Bruijn graphโ57Mar 13, 2025Updated last year
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic dataโ71Feb 23, 2026Updated 5 months ago
- Quantitative Microbiome Profilingโ15Mar 13, 2021Updated 5 years ago
- A list of weak Bacterial assemblies in GenBankโ18Aug 3, 2017Updated 9 years ago
- Simple, predictable pricing with DigitalOcean hosting โข AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- fwdpp is a C++ template library for implementing efficient forward-time population genetic simulationsโ28Oct 7, 2021Updated 4 years ago
- ggplot port in Perlโ14Mar 15, 2023Updated 3 years ago
- โ14Feb 6, 2020Updated 6 years ago
- Predict MLST directly from uncorrected long readsโ27Oct 31, 2025Updated 9 months ago
- Bacterial phylogenetics in BEAST 2.โ18Mar 30, 2023Updated 3 years ago
- UPHL's Reference Free Pipelineโ29Updated this week
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transformโ25Nov 20, 2025Updated 8 months ago