phac-nml / iridaView external linksLinks
Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology
☆43Apr 7, 2025Updated 10 months ago
Alternatives and similar repositories for irida
Users that are interested in irida are comparing it to the libraries listed below
Sorting:
- The MLST pipeline developed by the PathOGiST research group☆36Nov 29, 2023Updated 2 years ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Dec 31, 2025Updated last month
- IRIDA Next☆12Updated this week
- Intra-species bacterial contamination detection☆25Feb 5, 2026Updated last week
- Predict plasmids from uncorrected long read data☆41Oct 31, 2025Updated 3 months ago
- Contains a set of Galaxy Tools mostly written by the Bioinformatics core at NML☆16Sep 12, 2025Updated 5 months ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- (Obsolete) NCBI Prokaryotic Genome Annotation Pipeline. New site:☆16Sep 7, 2018Updated 7 years ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 5 years ago
- ProkEvo - an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses.☆18Aug 16, 2021Updated 4 years ago
- Efficient and comprehensive metadata acquisition from the NCBI databases (includes SRA).☆50May 25, 2022Updated 3 years ago
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆20Oct 8, 2025Updated 4 months ago
- The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information req…☆24Updated this week
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated last month
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆38Jan 21, 2026Updated 3 weeks ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Dec 11, 2020Updated 5 years ago
- Histosketching Using Little Kmers☆56May 25, 2023Updated 2 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆43Jul 23, 2021Updated 4 years ago
- Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.☆186Feb 6, 2026Updated last week
- ☆10Apr 16, 2025Updated 9 months ago
- A Python package to update the MLST database for the mlst tool.☆18Jan 16, 2026Updated 3 weeks ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆12Jun 30, 2023Updated 2 years ago
- Pan gGnome Viewer☆10Jul 10, 2025Updated 7 months ago
- Tree Health and Plant Biosecurity Initiative - Phytophthora ITS1 Classifier Tool☆10Feb 2, 2026Updated last week
- ☆26Oct 17, 2018Updated 7 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆32Apr 24, 2025Updated 9 months ago
- Awesome resources related to Galaxy project☆11Nov 23, 2024Updated last year
- Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences☆14Sep 2, 2016Updated 9 years ago
- ASMNGS18 - 2018 Conference Details☆12Oct 3, 2018Updated 7 years ago
- semi-reference-based short read compression☆11Mar 5, 2019Updated 6 years ago
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 2 months ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆27Aug 26, 2024Updated last year
- A curated database of completed assemblies with taxonomy IDs☆48Feb 6, 2026Updated last week
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆166Apr 16, 2025Updated 9 months ago
- extract SV signal from a BAM☆11Jul 26, 2018Updated 7 years ago
- ☆14Apr 4, 2023Updated 2 years ago
- Random utility scripts for genomics data☆12Feb 22, 2021Updated 4 years ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆13Aug 26, 2024Updated last year