What it does

Using phyloseq and customized R function, this tool constructs richness plots to visualise sample alpha diversity.

Inputs/Outputs

Input

Data file (format RData): One phyloseq object containing OTU abundance table, their taxonomies (and optionnaly a phylogenetics tree, and the sample experiment metadata. This file is the result of "FROGS Phyloseq Import Data tool".

Output

Html file (format HTML): the review of richness plots and rarefaction curves.

Alpha diversity table (alpha_diversity.tsv): The data file containing table of alpha diversity indices.

Contact

Contacts: frogs@inra.fr

Repository: https://github.com/geraldinepascal/FROGS website: http://frogs.toulouse.inra.fr/

Please cite the FROGS article: Escudie F., et al. Bioinformatics, 2018. FROGS: Find, Rapidly, OTUs with Galaxy Solution.