Prediction of RNA splicing kinetics in scRNA-seq data
This repository contains
- scripts for feature extraction on introns and genes,
- notebooks for estimating splicing and degradation rates,
- notebooks for prediction experiments
- processed data, including features and estimated splicing rates, which can be directly used as validation for machinie learning model development.
Project Organization
├── README.md <- Top-level README.md
├── data
│ ├── featuers <- Featreus at both intron and gene levels
│ ├── estimated <- Estimated splicing and degradation rates
│ ├── predicted <- Predicted splicing and degradation rates
│ └── raw <- Raw data (optional)
│
├── notebooks <- Jupyter notebooks
│ └── figures <- Figure generation for the paper
│ ├── estimate <- Estimating splicing and degradation rates
│ └── predicte <- Predicting splicing and degradation rates
│
└── src <- Source code for use in this project
├── preprocess <- Scripts to preprocess the data (incl. feature extraction and combination)
└── models <- Scripts to train models (optional)