Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
☆18Feb 12, 2016Updated 10 years ago
Alternatives and similar repositories for bacterial_GWAS_tutorial
Users that are interested in bacterial_GWAS_tutorial 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
- Locus and lineage tests for bacterial GWAS☆28Oct 5, 2017Updated 8 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Feb 6, 2018Updated 8 years ago
- sequence element (kmer) enrichment analysis☆45Nov 7, 2022Updated 3 years ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆108Feb 6, 2025Updated last year
- 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.
- Horizontal gene transfer (HGT) identification pipeline☆70May 17, 2023Updated 3 years ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Apr 16, 2024Updated 2 years ago
- A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concat…☆60May 7, 2026Updated 3 months ago
- A nextflow pipeline for performing bacterial RNA-Seq data analysis☆14Aug 20, 2026Updated last week
- SEER, reimplemented in python 🐍🔮☆138Jul 23, 2026Updated last month
- Searching for Horizontal Gene Transfer☆10Feb 22, 2020Updated 6 years ago
- KBase distribution module for RASTtk.☆15Sep 14, 2020Updated 5 years ago
- "Reads to report" for public health and clinical microbiology☆144Dec 9, 2025Updated 8 months ago
- Algorithm to divide a phylogenetic tree into segments based on phenotypes at the leaves of the tree☆26Jul 13, 2018Updated 8 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance☆23Mar 8, 2024Updated 2 years ago
- Get microbial sequence data easier and faster☆29Nov 7, 2019Updated 6 years ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆10Mar 10, 2026Updated 5 months ago
- A tool to infer TF regulators for gene modules.☆11May 11, 2021Updated 5 years ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆40Sep 22, 2022Updated 3 years ago
- Pan-genome wide association studies☆223May 29, 2024Updated 2 years ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆14Feb 9, 2025Updated last year
- Program for finding horizontal gene transfer using BLAST result☆11May 26, 2023Updated 3 years ago
- FxTools: a comprehensive toolkit for FASTA and FASTQ file manipulation☆31Feb 16, 2022Updated 4 years 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.
- Deep proteome inference from peptide profiles☆13Jul 16, 2020Updated 6 years ago
- Nextflow pipeline for generation of phylogenetic trees to be visualized in Auspice.☆10Jan 6, 2026Updated 7 months ago
- A collection of open source bioinformatics tools developed and used by Addgene.☆11Jun 25, 2026Updated 2 months ago
- Bioinformatics tool to find integrons in bacterial genomes☆94May 7, 2025Updated last year
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆109Jun 2, 2026Updated 3 months ago
- Phylogenetic tools for Eco-phylogenetics☆15Oct 10, 2024Updated last year
- Automated pipeline for whole bacterial genome analysis based on snakemake☆12May 16, 2022Updated 4 years ago
- Hominid: host-microbiome interaction identification☆16Jun 17, 2024Updated 2 years ago
- Rapid identification of Staphylococcus aureus agr locus type and agr operon variants.☆14Jan 6, 2023Updated 3 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Microbiome Classifier Pipeline for Pacific Biosciences 16s Data☆11Jan 22, 2024Updated 2 years ago
- Archived - please see updated sccmec tool at link below☆13Aug 30, 2024Updated 2 years ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆63May 5, 2026Updated 3 months ago
- Processing pipeline for pan-genome visulization and exploration☆146Oct 9, 2023Updated 2 years ago
- ProkEvo - an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses.☆19Aug 16, 2021Updated 5 years ago
- ☆19Aug 12, 2026Updated 3 weeks ago