FROGS formation : tools for bioinformatics and statistics analyses with amplicon metagenomics data (29/11/2021 - 02/12/2021)
The Toulouse Genopole bioinformatics platform, Sigenae and NED (GenPhySE) organize a series of training courses to familiarize yourself with the various resources it provides. These resources are currently: the hardware infrastructure, biological data banks and widely used bioinformatics softwares. This training session, organized by Bioinfo Genotoul, Sigenae and NED (GenPhySE), is designed to help you to deal with NGS data of 16S, 18S, ITS … DNA produced with MiSeq from Illumina and Roche 454 technologies in the Galaxy workbench. You will discover how to use our Galaxy instance, clean reads, clusterize them, do the taxonomic affiliation and perform statistics to interpret your results with the FROGS pipeline (http://frogs.toulouse.inrae.fr/).
This training focuses on practice.
Part 1: on 16S datasets, we manipulate FROGS tools for : data preprocessing, clustering, graphical interpretations, removal chimera step, filtering step, using tools for results visualization and affiliation step.
Part 2: Statistics analysis FROGS tools : import and manipulate data, measuring diversity: Alpha, Beta, measuring diversity: Unifrac, Bray Curtis, etc., ordination and dimension reduction: MDS, clustering and heatmap, comparing samples: PERMANOVA, adonis. Differential analysis with DeSeq2.
Part 3 : ITS data manipulation, what’s the difference ? And workflow constructions.
The session will take place in the room ‘salle de formation’ at INRA center of Toulouse-Auzeville.
WARNING COVID19 : This session will take place remotely via the zoom tool.