A Resource Of Microbiome Benchmark Datasets With Biological Ground Truth
Channel: R Consortium
Date: 09/09/2022

Samuel Gamboa, PHD, with the Centro de Investigación Científica de Yucatán, gave a short talk at the BioConductor Conference 2022. Gamboa gave his presentation on A Resource Of Microbiome Benchmark Datasets With Biological Ground Truth. 

Gamboa began the presentation by introducing the methods for the differential analysis approach and gave an overview of the challenges presented. He then continued to explain the methods used to cover the challenges including the limitations presented. Gamboa also shared various collections of datasets and shared some background information and how the team tackled various issues. Gamboa talked about the data gathered and benchmarks for the Stammler_2016_spikein datase, along with methods to compare datasets. The presentation concluded with a short Q&A session from the audience. 


Main Sections

0:00 Introduction
0:48 Methods for differential abundance analysis
2:20 Limited options of benchmark datasets with biological ground truth
3:15 Collection of datasets 
5:10 Increasing FAIR and usage of biological datasets with known ground truth
8:02 Data for benchmarking with the Stammler_2016_spikein dataset 
9:56 Summary and perspectives 
10:36 Acknowledgements and q&a 

More Resources 

Bioconductor Conference Site: https://bioc2022.bioconductor.org/ 
BioC2022 Github: https://github.com/Bioconductor/BioC2022 

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