Wellwellwelcome! In this repository you will find tools for processing 96-well plate data. There are 4 distinct parts to this toolset:

• data ingest: reading in raw data formats produced by various 96-well plate processors
• normalization: pre-processing of data to make it compatible for adequate analysis
• statistical analysis: computation of valuable statistics
• plots: different plots for visualizing statistics

If this software does not do what you need it to do, please make an issue! I am looking for:

• examples of plots and graphs that you would like to recreate
• datasets that you would like to process
• statistical tests that you would like to run
• normalization methods you have seen uin the wild and would like to have critically evaluated

Technologies

• polars is used for data transformations; it is a modern alternative to pandas and is very fast and efficient for both big and small datasets
• seaborn is used for plots; it is a very low level layer over matplotlib allowing for both a good degree of readability and ergonomics in creating visualizations

Quickstart

There are 2 ways to get started with this project and depending on your intentions, you should pick whichever suits you best.

Use the codespace quickstart if:

• you just want to get to the data analysis
• you don't have a lot of python experience
• you are not excited by the prospect into running into issues with installing stuff
• you want an easily reproducible pipeline that you can share with peers and stakeholders

Use the developer quickstart if:

• pip install is not gibberish to you
• you intend to use this as only a small part of a much mroe complex pipeline

Codespace quickstart

TODO: instructions

Video Tutorial

Developer quickstart

1. clone the repository
2. install poetry using pipx (python3 -m pipx install poetry)
3. poetry install in the root directory

Examples

• area under curve of ros assays