Is a repository from the Yeast group at Applied Microbiology, Lund University, Sweden.
The code found in this repository was used to process the data from the paper Brink et al (2016).
At the moment, this repository contains the following tools for flow cytometry data analysis:
FI_size_normalization_loader
is a custom initiation script for the Knijnenburg morphology correction model for flow cytometry data. This script enables automated high-throughput data analysis of .fcs files by calling said correction model, extracting the normalized data and performing calculations on the geometrical mean of the histograms on the FL1-H channel (can be modified to assess also other channels).
batch_name_change_accuri_fc_data
is a Python3 script for automized batch renaming of .fcs files generated by the BD Accuri C6 software. The script has been co-designed with the Matlab script FI_size_normalization_loader.m, and the Python script can therefore output the renamed files in the directory hierachy required by the Matlab script.