Galaxy |

FROGSSTAT Phyloseq Import Data (version 1.0.0)

Standard biom file:

The file contains the OTU informations (format: biom1).

Sample tsv file:

The file contains the samples informations (format: tabular).

Tree file:

The file contains the tree informations (format: Newick - nhx or nwk).

Names of taxonomics levels:

The ordered taxonomic levels stored in BIOM. Each level is separated by one space.

Do you want to normalise your data ?:

To normalise data before analysis.

Launch Rmarkdown script to import data from 3 files: biomfile, samplefile, treefile into a phyloseq object.

Input

OTU biom file:

The OTU biom file (format biom1). This file is the result of FROGS BIOM to std BIOM. The example of biom file:

Newick file (tree.nwk):

Newick file (format nxh) is the result of FROGS Tree:

Sample file: The file contains the conditions of experiment with sample ID in the first column:

Output

Html file (format HTML): The summary of phyloseq object.

Data file (format rdata): The informations of data in one phyloseq object.

Contacts: frogs@inra.fr

Repository: https://github.com/geraldinepascal/FROGS

Please cite the FROGS Publication: Escudie F., Auer L., Bernard M., Cauquil L., Vidal K., Maman S., Mariadassou M., Combes S., Hernandez-Raquet G., Pascal G., 2016. FROGS: Find Rapidly OTU with Galaxy Solution. In: ISME-2016 Montreal, CANADA , http://bioinfo.genotoul.fr/wp-content/uploads/FROGS_ISME2016_poster.pdf

Depending on the help provided you can cite us in acknowledgements, references or both.