Pooled multicolour tagging for visualizing subcellular protein dynamics

Image processing pipeline and detecting drug-induced changes to proteins for article Reicher*, Reiniš*, et al. Nature Cell Biology, 2024.

Contents

• pipeline_control_script: used to control the pipeline run, specifies paths to datasets and all processing parameters; generates bash scripts ran by slurm; takes care of parallelization where necessary
• pipeline_modules: standalone python scripts invoked by individual parts of the pipeline
• hit_calling: transforms output of the pipeline into a list of hit candidates
• cellprofiler_pipeline: input file for CellProfiler - specifies modules used and features to extract
• model_training: training of the random forest models for clone discrimination
• conda_environments: list of packages and versions