Hierarchical clustering of cgMLST
☆13Nov 20, 2023Updated 2 years ago
Alternatives and similar repositories for pHierCC
Users that are interested in pHierCC 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 surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆51Oct 27, 2026Updated last week
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Sep 2, 2021Updated 5 years ago
- This is the source code for ARGs-OAP v2.0 construction☆13Aug 1, 2019Updated 7 years ago
- Use tbl2asn forever by pretending that it's still 2019☆12Jan 24, 2020Updated 6 years ago
- phy-mer☆11Oct 12, 2017Updated 9 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- SARS-CoV-2 analysis pipeline for multiplex-PCR MPS(Massive Parrallel Sequencing) data☆20Jan 24, 2022Updated 4 years ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 3 years ago
- For all your cluster needs☆20Feb 3, 2023Updated 3 years ago
- Strain Prediction and Analysis with Representative SEquence☆19Dec 8, 2024Updated last year
- ☆16Oct 29, 2025Updated last year
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆72Feb 23, 2026Updated 8 months ago
- Assembly of Nanopore Sequencing☆17Oct 9, 2026Updated 3 weeks ago
- Development moved to https://gitlab.com/cgps/tools/qualibact. QC cutoffs for bacterial genomes.☆19Updated this week
- StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.☆19Aug 28, 2026Updated 2 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ☆13Sep 4, 2017Updated 9 years ago
- Biological file format specimens for testing packages, and functions to assist in testing.☆16Nov 18, 2025Updated 11 months ago
- ☆23Apr 2, 2026Updated 7 months ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information req…☆26Jul 11, 2026Updated 3 months ago
- all methods related to Enterobase☆44Sep 4, 2024Updated 2 years ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆24Mar 20, 2026Updated 7 months ago
- ☆10May 31, 2022Updated 4 years ago
- Bacterial Isolate Genome Sequence Database (BIGSdb): A platform for gene-by-gene bacterial population annotation and analysis.☆79Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆24Mar 20, 2023Updated 3 years ago
- Pipeline for analyzing rare mutations in metagenome-assembled genomes☆10Apr 4, 2025Updated last year
- Argo: species-resolved profiling of antibiotic resistance genes in complex metagenomes through long-read overlapping☆17Aug 24, 2026Updated 2 months ago
- GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…☆92Oct 3, 2026Updated last month
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆31Jul 18, 2025Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆35Jul 27, 2026Updated 3 months ago
- Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasm…☆53Feb 2, 2021Updated 5 years ago
- ☆10Jul 19, 2024Updated 2 years ago
- A straightforward bioinformatic pipeline for detecting a bacterial strain in one or more metagenome(s).☆18Jul 10, 2018Updated 8 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- whole genome MLST analysis☆57Jun 17, 2026Updated 4 months ago
- Repository containing the code to reproduce the analyses contained in the MEFISTO manuscript☆13Jul 27, 2021Updated 5 years ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆39Feb 26, 2023Updated 3 years ago
- A taxonomic classifier of plasmids☆32Jul 7, 2021Updated 5 years ago
- Rapidly subtype microbial genomes using single-nucleotide variant (SNV) subtyping schemes☆28Dec 9, 2024Updated last year
- Code Safety Inspection Service☆20Sep 23, 2022Updated 4 years ago
- Web interface for Kaptive, the tool for in silico serotyping☆11Aug 7, 2026Updated 3 months ago