CDCgov / MicrobeTrace
The Visualization Multitool for Molecular Epidemiology and Bioinformatics
☆88Updated 3 weeks ago
Related projects ⓘ
Alternatives and complementary repositories for MicrobeTrace
- Cluster Investigation & Virus Epidemiology Tool☆49Updated last year
- Reconstruction of transmission trees using genomic data☆60Updated last year
- 🔥🐦🔥PHoeNIx: A short-read pipeline for healthcare-associated and antimicrobial resistant pathogens☆57Updated this week
- R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al.…☆29Updated 2 weeks ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆27Updated this week
- Collection template and associated materials for SARS-CoV-2 metadata☆34Updated last year
- Bioinformatics Pipeline and Visualization resources☆54Updated 2 months ago
- Global phylogenies of SARS-CoV-2 sequences☆86Updated last year
- Rapid analysis and visualization of coronavirus genome variation☆46Updated last week
- Phylogenetics between and within hosts at once, all along the genome.☆47Updated last month
- ☆74Updated 9 months ago
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆35Updated 2 years ago
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆54Updated last year
- ☆48Updated 2 years ago
- Process consensus file for COG-UK data☆14Updated 3 years ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3☆13Updated last year
- serious constellations of reoccurring phylogenetically-independent origin☆38Updated last year
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆25Updated this week
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆47Updated 6 months ago
- SC2 variant detection and composition pipeline☆16Updated last year
- A tool for exploring large trees in the browser☆100Updated this week
- Reference-based consensus creation☆50Updated this week
- Programmatically interact with the GISAID database.☆71Updated last month
- Read Assembly and Annotation Pipeline Tool☆55Updated last month
- R We There Yet?☆30Updated 2 years ago
- Tutorial on using E-utilities☆19Updated 3 years ago
- ☆23Updated 2 months ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health con…☆37Updated this week
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆52Updated 2 months ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics☆20Updated 5 years ago
- Utility to alias and dealias pango lineages☆21Updated 10 months ago