Metadata-Version: 2.4
Name: yorzoi
Version: 0.0.3
Summary: Machine learning model that predicts RNA-seq coverage from DNA
Home-page: https://github.com/Tom-Ellis-Lab/yorzoi
Author: Timon Schneider
Author-email: mail@timonschneider.de
Description-Content-Type: text/markdown
License-File: LICENSE.txt
Requires-Dist: packaging
Requires-Dist: ninja
Requires-Dist: einops>=0.5
Requires-Dist: matplotlib
Requires-Dist: pandas
Requires-Dist: torch>=2.1.0
Requires-Dist: wandb
Requires-Dist: transformers>=4.34.1
Requires-Dist: numpy>=1.14.2
Dynamic: license-file

# Yorzoi: RNA-seq coverage prediction from DNA sequence

yorzoi is a deep neural network that predicts RNA-seq coverage from DNA sequence in Yeast (S. Cerevisiae). It is available via PyPI and Huggingface (see installation).

## Installation

1. You will need an NVIDIA GPU to run Clex.
2. Create a new virtual environment (e.g.: `python -m venv .venv`) and activate it (e.g. `source .venv/bin/activate`)
3. Clex requires FlashAttention to be installed: https://github.com/Dao-AILab/flash-attention. We recommend downloading a pre-built wheel suitable for your GPU.
4. `pip install yorzoi`

## Quick Start: Make a prediction
