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marshall-lab authored Oct 28, 2023
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Expand Up @@ -4,13 +4,13 @@ Universal chromatin HMMs (now superseeded by ChroMATIC)

# About

This is a repository of analysis scripts for Hidden Markov Modelling of chromatin states, as used in Manon et al (in revision).
This is a repository of analysis scripts for the Hidden Markov Modelling of chromatin states, as used in Manon et al 2023. Chromatin state definitions and calls are based on unpublished data and research from the Marshall lab.

> **Warning** These scripts are forerunners of **ChroMATIC**, a complete gaussian Chromatin HMM analysis package that provides fully-automated analysis, machine-learning assignment of chromatin states, multi-modal inference and more.
>
> Please see our [preprint on bioRxiv](https://www.biorxiv.org/content/10.1101/2022.10.30.514435v1.abstract) for more details.
>
> The full source code of ChroMATIC will be released upon publication, but if you're interested in using ChroMATIC before this, please email Owen Marshall directly.
> The full source code of ChroMATIC will be released upon publication, but if you're interested in using ChroMATIC before this, please email the Marshall lab.
# Installation

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