CDCgov / MicrobeTrace
The Visualization Multitool for Molecular Epidemiology and Bioinformatics
β92Updated last week
Alternatives and similar repositories for MicrobeTrace:
Users that are interested in MicrobeTrace are comparing it to the libraries listed below
- 𧬠π» TOSTADAS β Toolkit for Open Sequence Triage, Annotation and DAtabase Submissionβ27Updated this week
- Reconstruction of transmission trees using genomic dataβ62Updated last year
- Phylogenetics between and within hosts at once, all along the genome.β48Updated 6 months ago
- R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al.β¦β33Updated 2 weeks ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3β15Updated last year
- β18Updated this week
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)β54Updated 2 years ago
- β49Updated 3 years ago
- Rapid analysis and visualization of coronavirus genome variationβ48Updated 3 weeks ago
- Global phylogenies of SARS-CoV-2 sequencesβ86Updated last year
- A tool for exploring large trees in the browserβ109Updated 3 weeks ago
- Collection template and associated materials for SARS-CoV-2 metadataβ35Updated last year
- 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 inputβ¦β35Updated 2 years ago
- Cluster Investigation & Virus Epidemiology Toolβ50Updated 2 years ago
- CZID (formerly IDseq) infectious disease command-line interfaceβ21Updated 9 months ago
- Nextstrain build for avian influenza virusesβ25Updated 3 weeks ago
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositoriesβ36Updated this week
- Bioinformatics Pipeline and Visualization resourcesβ55Updated 7 months ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health conβ¦β49Updated this week
- Tutorial on using E-utilitiesβ22Updated last month
- Small collection of tools for performing quality control on coronavirus sequencing data and genomesβ48Updated 11 months ago
- Ultrafast Sample Placement on Existing Treesβ126Updated this week
- Phylogenetic tree library for JavaScript/Node.jsβ35Updated 2 years ago
- π₯π¦π₯PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogensβ72Updated this week
- Programmatically interact with the GISAID database.β75Updated 2 weeks ago
- FAVITES (FrAmework for VIral Transmission and Evolution Simulation)β38Updated last year
- A toolkit for analyzing and visualizing phylogenetic placement dataβ60Updated 2 months ago
- Process consensus file for COG-UK dataβ14Updated 3 years ago
- Visualization of the pan-genome output by panXβ63Updated 2 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermberβ57Updated 7 months ago