What it does
This module plots the raw data of a single feature as an abundance histogram with class and subclass information. You can select the feature to plot among the set of features detected by LEfSe as biomarker or among the full set of features.
Input format
The module accepts two datasets: the data formatted with the "Format Input for LEfSe" module and the output of the LEfSe analysis. Both datasets are necessary to run the module.
Output format
The module generates images in png, svg or pdf format. The png format is recommended for exploratory runs as it can be easily visualized internally in Galaxy, whereas the vectorial svg and pdf format are recommended for the final publication-ready image to be downloaded.
Advanced parameter settings
Examples
Selecting the Clostridia clade from the biomarkers detected by LEfSe in the dataset provided here and described in the "Introduction", we obtain the following image:
Another example, taken from the analysis we detailed in (Segata et. al 2011) that compares the viral and bacterial microbiomes using metagenomic data from (Dinsdale et. al 2008):