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Update README.md
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yutongo committed Oct 11, 2023
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Expand Up @@ -8,17 +8,17 @@ gene regulatory network (GRN) from time-series scRNA-seq snapshots.

# Requirements
The training framework is implemented in PyTorch and Neural ODEs. Given a stable internet connection, it will take several minutes to install these packages:
1. Python=3.6.8
2. torch=1.9.0
3. scipy=1.5.2
4. [TorchDiffEqPack](https://jzkay12.github.io/TorchDiffEqPack/TorchDiffEqPack.odesolver.html)=0.1.0
5. [torchdiffeq](https://github.com/rtqichen/torchdiffeq)=0.2.2
* pytorch 1.13.1
* scipy 1.10.1
* [TorchDiffEqPack](https://jzkay12.github.io/TorchDiffEqPack/TorchDiffEqPack.odesolver.html) 1.0.1
* [torchdiffeq](https://github.com/rtqichen/torchdiffeq) 0.2.3
* Recommended: An Nvidia GPU with CUDA support for GPU acceleration


For generating plots to visualize results, the required packages are listed:
1. numpy=1.19.5
2. seaborn=0.11.2
3. matplotlib=3.1.2
* numpy 1.23.5
* seaborn 0.12.2
* matplotlib 3.5.3


# Input Files
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