Krona plots for biodiversity, including eDNA

marinebon / sdg14

Products for Sustainable Development Goal 14 on Life in the Sea

http://marinebon.github.io/sdg14

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Krona plots for biodiversity, including eDNA #32

Open bbest opened 6 years ago

bbest commented 6 years ago

Home · marbl/Krona Wiki
cpauvert/psadd: PSADD -- PhyloSeq ADDitions
plot_krona: Interactive Taxonomy plot with Krona from a phyloseq object in cpauvert/psadd: Additions to phyloseq package for microbiome analysis
pierreLec/KronaR: add Krona to Shiny

bbest commented 6 years ago

Better yet, use these R packages with htmlwidget/Shiny hooks per CRAN Task View: Phylogenetics, Especially Comparative Methods:

ggtree: visualization and annotation of phylogenetic trees
phylocanvas: htmlwidgets for phylocanvas

bbest commented 6 years ago

Great suggestion from Stace Beaulieu at WHOI:

Foster ZSL, Sharpton TJ, Grünwald NJ (2017) Metacoder: An R package for visualization and manipulation of community taxonomic diversity data. PLoS Comput Biol 13(2): e1005404. https://doi.org/10.1371/journal.pcbi.1005404

grunwaldlab/metacoder