Locus and lineage tests for bacterial GWAS
☆28Oct 5, 2017Updated 8 years ago
Alternatives and similar repositories for bugwas
Users that are interested in bugwas 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 pipeline for performing genome-wide association tests for bacterial genomes.☆28Apr 11, 2018Updated 8 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Feb 12, 2016Updated 10 years ago
- Pan-genome wide association studies☆218May 29, 2024Updated last year
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆16Apr 29, 2022Updated 4 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- sequence element (kmer) enrichment analysis☆45Nov 7, 2022Updated 3 years ago
- ☆20Jan 23, 2019Updated 7 years ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆121May 14, 2026Updated last week
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Feb 6, 2018Updated 8 years ago
- A Simulator for Bacterial Machine learning and Genome-Wide Association Studies☆22Jul 21, 2021Updated 4 years ago
- ☆38Apr 14, 2022Updated 4 years ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆155Dec 31, 2025Updated 4 months ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆106Feb 6, 2025Updated last year
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 5 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- "Reads to report" for public health and clinical microbiology☆144Dec 9, 2025Updated 5 months ago
- Generate interactive dotplot from mummer4 output using plotly☆27Feb 29, 2020Updated 6 years ago
- SEER, reimplemented in python 🐍🔮☆133Mar 24, 2026Updated last month
- Source code for SimBac, a bacterial genome simulator☆14Sep 20, 2024Updated last year
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆174Apr 16, 2025Updated last year
- Phylotype your strains using Clermont's 2013 method: ezclermont.org☆15May 5, 2026Updated 2 weeks ago
- Get microbial sequence data easier and faster☆28Nov 7, 2019Updated 6 years ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Apr 16, 2024Updated 2 years ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 3 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Hominid: host-microbiome interaction identification☆16Jun 17, 2024Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- a collection of scripts for organising bacterial genomes by species☆81Mar 18, 2022Updated 4 years ago
- k-mer counting software☆41Feb 8, 2022Updated 4 years ago
- A tool for removing redundant genomes from a set of assemblies☆81May 6, 2026Updated 2 weeks ago
- Identify phage regions in bacterial genomes for masking purposes☆33Sep 5, 2019Updated 6 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Feb 3, 2021Updated 5 years ago
- semi-reference-based short read compression☆11Mar 5, 2019Updated 7 years ago
- Recombination-free trees☆68Apr 26, 2026Updated 3 weeks ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Apr 22, 2026Updated last month
- (Greetings_here_is_yet_another) Rate of Adaptive Protein Evolution Software☆10Jul 19, 2024Updated last year
- A nextflow pipeline for performing bacterial RNA-Seq data analysis.☆13Apr 26, 2026Updated 3 weeks ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆108Mar 2, 2026Updated 2 months ago
- Small utility to quickly find size and GC content of a fasta file. Can also extract sequence. Who doesn't like QUICK and DIRTY!☆13Aug 27, 2018Updated 7 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Aug 8, 2022Updated 3 years ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆41Oct 23, 2024Updated last year