artic-network / civetLinks
Cluster Investigation & Virus Epidemiology Tool
☆50Updated 5 months ago
Alternatives and similar repositories for civet
Users that are interested in civet are comparing it to the libraries listed below
Sorting:
- Reconstruction of transmission trees using genomic data☆68Updated 2 years ago
- Phylogenetics between and within hosts at once, all along the genome.☆50Updated last year
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆51Updated 3 years ago
- Global phylogenies of SARS-CoV-2 sequences☆85Updated 2 years ago
- rhierbaps: R implementation of hierBAPS☆36Updated 4 years ago
- A set of scripts for calculating pairwise SNP distance☆43Updated 2 years ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆28Updated 2 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.☆58Updated 8 months ago
- Rapid analysis and visualization of coronavirus genome variation☆48Updated 2 months ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆39Updated 2 years ago
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49Updated last year
- SHallow shOtGUN profiler☆53Updated 3 years ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆93Updated 4 months ago
- Pipeline to generate NGS reads from a phylogeny☆39Updated 3 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆68Updated 3 years ago
- Scalable relaxed clock phylogenetic dating☆27Updated 3 months ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 7 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Automated pipeline for analyses of fungal ITS from the Illumina☆31Updated 7 months ago
- Bioinformatics Pipeline and Visualization resources☆60Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 5 years ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆47Updated 3 years ago
- GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…☆85Updated 11 months ago
- Predict plasmids from uncorrected long read data☆41Updated last month
- ☆36Updated 8 months ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 7 years ago
- ☆18Updated 2 months ago
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆38Updated last week
- ☆18Updated last year