SGAtools offers a single stop solution for analysing data from genetic screens. There are three steps to the analysis pipeline, each of which can also be run separately from the rest. First, images of plates with colonies are processed to give quantified colony sizes for the screen. Next, the colony sizes are normalised and filtered within plates, taking into account position effects and other confounding factors.
PhysioFit is a scientific tool designed to i) quantify exchange (production and consumption) fluxes and ii) cell growth rate during (batch) cultivations of microorganisms. Fluxes are estimated from time-course measurements of extracellular metabolites and biomass concentrations.
Seed (Simple Exploration of Ecological Datasets) is an R/Shiny package for visualizing ecological data. It provides a visual interface for generating a wide variety of plots, including histograms, scatterplots, bar plots, stacked bar plots, PCoA plots, cluster dendrograms, and heatmaps.
The micropower package is designed to facilitate power estimation for microbiome studies that will be analyzed with pairwise distances (beta diversity) and PERMANOVA (a non-parametric extension of multivariate analysis of variance to a matrix of pairwise distances).
MycPermCheck, given the current lack of precise molecular criteria determining mycobacterial permeability, represents an unprecedented prediction tool intended to support antimycobacterial drug discovery.
Community Analyzer is a GUI based Comparative Metagenomic Analysis platform that can be used to perform interactive ‘on the fly’ analysis of a given set of metagenomes on a PC/laptop with modest hardware configurations.