This repository contains the official implementation of Chromnitron and its associated data-processing pipeline, Chrom2vec. For early testing, only the inference pipeline for Chromnitron and ATAC-seq processing component for Chrom2Vec are included. Please stay tuned for upcoming full release.
Read our pre-print on biorxiv.
For those looking to get started with Chromnitron quickly, we recommend the following resources:
- Google Colab: Explore Chromnitron's features in an interactive environment Colab.
- Local Inference: For local setup, refer to the detailed instructions in the Chromnitron README.
- Custom Analysis: If you want to use Chromnitron with your own ATAC-seq data, please refer to the Chrom2Vec README.
This repository is organized into two sub-repositories:
chromnitron/: This directory holds the core Chromnitron model, designed for predicting chromatin-associated protein binding.chrom2vec/: This directory contains the Chrom2vec pipeline, essential for processing raw sequencing data into a format suitable for Chromnitron.
For more detailed information on each component, please see the respective README files under each subrepo:
chromnitron/README.mdchrom2vec/README.md