Metacoder
Metacoder is a software tool to plot and manage large taxonomic datasets. The Metacoder algorithm includes functions to plot heat trees, sum counts for each taxon, proportional counts, rarefaction counts, abundance counts, coalesce group sample data, PCR simulation, and data format conversion.
Topic
Phylogeny;Taxonomy;Data visualisation
Detail
Operation: Phylogenetic tree visualisation;Phylogenetic tree generation
Software interface: Library
Language: R,C++
License: The MIT License
Cost: Free
Version name: 0.3.5
Credit: USDA ARS CRIS Project, the USDA ARS Floriculture Nursery Research Initiativ, National Sciences Foundation (NSF).
Input: -
Output: -
Contact: Niklaus J. Grünwald nik.grunwald@ars.usda.gov
Collection: -
Maturity: Mature
Publications
- Metacoder: An R package for visualization and manipulation of community taxonomic diversity data.
- Foster ZS, Sharpton TJ, Grünwald NJ. Metacoder: An R package for visualization and manipulation of community taxonomic diversity data. PLoS Comput Biol. 2017 Feb 21;13(2):e1005404. doi: 10.1371/journal.pcbi.1005404. PMID: 28222096; PMCID: PMC5340466.
- https://doi.org/10.1371/journal.pcbi.1005404
- PMID: 28222096
- PMC: PMC5340466
Download and documentation
Source: https://github.com/grunwaldlab/metacoder/releases/tag/v0.3.5
Documentation: https://grunwaldlab.github.io/metacoder_documentation/
Home page: https://github.com/grunwaldlab/metacoder
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