Methylation analysis with modality

This is a collection of notebooks which illustrate how to use modality to analyse your methylation data.

The main modality documentation is accessible here.

The examples include:

• Exploratory analysis

• Working with genomic ranges

• Plotting methylation traces

• Calling differentially methylated regions

Predicting gene expression two-part deep dive:

• Part 1: Feature Generation

• Part 2: Training and Evaluating the Model

Predicting chromatin accessibility two-part deep dive:

• Part 1: Feature Generation

• Part 2: Training and Evaluating the Model