CDCgov / phoenix
π₯π¦π₯PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens
β62Updated this week
Alternatives and similar repositories for phoenix:
Users that are interested in phoenix are comparing it to the libraries listed below
- π»βπ¨ Calculate distance matrix from ChewBBACA cgMLST allele call tablesβ27Updated last year
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositoriesβ34Updated 2 weeks ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenomeβ48Updated 2 years ago
- Bioinformatics Pipeline and Visualization resourcesβ55Updated 5 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasetsβ28Updated 6 months ago
- whole genome MLST analysisβ40Updated 8 months ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, esβ¦β42Updated 5 months ago
- SC2 variant detection and composition pipelineβ16Updated last year
- Split k-mer analysis β version 2β73Updated this week
- Small utility script to submit genomes to PHASTER for phage detectionβ23Updated 3 years ago
- Gene-flank analysis toolβ26Updated last month
- UPHL's Reference Free Pipelineβ25Updated this week
- hecatomb is a virome analysis pipeline for analysis of Illumina sequence dataβ57Updated 2 weeks ago
- Influenza genome analysis Nextflow workflowβ19Updated last week
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic dataβ59Updated 2 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genesβ34Updated last week
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.β14Updated this week
- β23Updated last month
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermberβ53Updated 4 months ago
- Predict plasmids from uncorrected long read dataβ39Updated 5 years ago
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.β24Updated 3 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomesβ41Updated last month
- β44Updated 2 weeks ago
- TAXnomic Profile Aggregation and STAndardisationβ35Updated 3 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing readsβ35Updated 3 years ago
- β28Updated last month
- Read Assembly and Annotation Pipeline Toolβ56Updated 3 months ago
- Working with the outputs of sourmash in Rβ26Updated last year
- Miscellaneous Perl scripts from 20 years in microbial bioinformaticsβ17Updated 6 months ago
- A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.β27Updated this week