https://github.com/geometric-intelligence/proteo
AI Proteomics
https://github.com/geometric-intelligence/proteo
Last synced: 12 months ago
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AI Proteomics
- Host: GitHub
- URL: https://github.com/geometric-intelligence/proteo
- Owner: geometric-intelligence
- Created: 2024-02-29T18:15:06.000Z (over 2 years ago)
- Default Branch: main
- Last Pushed: 2025-06-11T23:24:12.000Z (about 1 year ago)
- Last Synced: 2025-06-12T00:31:52.496Z (about 1 year ago)
- Language: Jupyter Notebook
- Size: 318 MB
- Stars: 1
- Watchers: 3
- Forks: 0
- Open Issues: 2
-
Metadata Files:
- Readme: README.md
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README
# AI Proteomics
# Set up
```shell
$ conda create -n proteo --file conda-linux-64.lock
$ conda activate proteo
$ R
$ if (!requireNamespace("BiocManager", quietly = TRUE))
$ install.packages("BiocManager")
$ BiocManager::install("WGCNA")
$ q()
$ poetry install --with=dev,gpu
$ Add "export LD_PRELOAD=/home/lcornelis/anaconda3/envs/proteo/lib/libstdc++.so.6" to nano ~/.bashrc file
```
# Dev
Only run if changes are made to the environment files.
To recreate the conda lock, after modifying conda.yaml:
```shell
pip install conda-lock
make conda-linux-64.lock
```
To recreate the poetry lock, after modifying pyproject.toml:
```shell
make poetry.lock
```
Note: you need to have poetry installed for this, which means that you need to be in proteo.
And then go back to set up step above.