Multiplex Analysis Web Apps

Multiplex Analysis Web Apps (MAWA) is a collection of tools developed by data scientists at NIH/NCI/CBIIT to support researchers utilizing multiplex imaging techniques. This suite of apps employs a Streamlit interface and for NIH users can be accessed using NIDAP free of charge.

Local installation and execution (working on both Ubuntu and Windows as of 2024-02-08)

Remember, at NIH, no installation is required; NIDAP should be used instead. NIH users should contact the authors below for more information.

conda update -n base -c conda-forge conda
conda env create -f environment-2024-02-08.yml
conda activate mawa-2024-02-08
streamlit run Multiplex_Analysis_Web_Apps.py

Using MAWA

Each page or app within MAWA is located in the pages folder in this repo. The pages are as follows:

1. data_import_and_export.py
2. datafile_format_unifier.py
3. open_file.py
4. robust_scatter_plotter.py
5. thresholded_phenotyping.py
6. multiaxial_gating.py
7. adaptive_phenotyping.py
8. Pheno_Cluster_a.py
9. Pheno_Cluster_b.py
10. Tool_parameter_selection.py
11. Run_workflow.py
12. Display_individual_ROI_heatmaps.py
13. Display_average_heatmaps.py
14. Display_average_heatmaps_per_annotation.py
15. Display_ROI_P_values_overlaid_on_slides.py
16. Neighborhood_Profiles.py
17. UMAP_Analyzer.py
18. Clusters_Analyzer.py
19. radial_bins_plots.py
20. radial_profiles_analysis.py
21. preprocessing.py
22. memory_analyzer.py
23. results_transfer.py

Authors

Andrew Weisman
Dante Smith
Andrei Bombin