Analysing how ROS burst (in spinach) are altered by single effectors using a D36E effector-delivery-platform
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The repository contains scripts required to analyse the output of a luminometer using a 96-well-plate format (format is shown in raw data files)
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The scripts are to be run in order from Step_1 to Step_3
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There are two alternative scripts for every step. One pipeline normalises the data based on the control mean, the other pipeline based on the control median.
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data wrangling and normalisation uses python
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data visualisation and statistical analysis is carried out in R
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Raw data files: are named by data_ROS_plate_processed - files essentially contain raw data, however, the first rows of the file were removed in order to input into the downstream analyisis pipeline (hence _processed) Note: not all plates are ultimately included into the visualisation due to assay repeats/failed assays (information in .R scripts)
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Meta data: meta data are collected in the MM20221209_summary_ROS_DC3000_ef_library.xlsx file. This file contains all information required to analyse the raw data.