rprops/MSys_minireview

MSys_FCMreview

This repository accompanies the minireview 'Computational Analysis of Microbial Flow Cytometry Data'. In this repository, you can find a demo of a flow cytometry bioinformatics pipeline tailored towards microbial data. It includes preprocessing, visualization, cytometric fingerprinting and ecological inferences ($\alpha$- and $\beta$-diversity). Note that such a pipeline can differ at many locations. We aim to provide an example on how to automate the data analysis pipeline, not to provide a single best solution.

We used an external dataset, published by Liu and colleagues (2018). Note that the dataset is too large to add to this repository, but it can be freely downloaded via FlowRepository using the identifier FR-FCM-ZZTV.