| Name | SpaRED JSON |
| Version |
1.0.8
JSON |
| download |
| home_page | https://github.com/dvegaa00/Library_Spared_Spackle/tree/main |
| Summary | SpaRED and Spackle library |
| upload_time | 2024-07-04 23:57:03 |
| maintainer | None |
| docs_url | None |
| author | Daniela Vega |
| requires_python | >=3.7 |
| license | Copyright (c) 2024 The Python Packaging Authority (PyPA) Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. |
| keywords |
spared
spackle
bioinformatics
spatial transcriptomics
|
| VCS |
 |
| bugtrack_url |
|
| requirements |
No requirements were recorded.
|
| Travis-CI |
No Travis.
|
| coveralls test coverage |
No coveralls.
|
# Library_Spared_Spackle
This repository contains all the necessary files to create a PyPI library to the SPARED and SpaCKLE contributions
This is the README file which will contain the long description of the PiPy library. Most libraries have a README file. Mean while this file will only contain this information and will be soon updated.
## System Dependencies
Before installing the Python package, ensure the following system dependencies are installed:
```sh
conda install pytorch torchvision torchaudio pytorch-cuda=11.8 -c pytorch -c nvidia
pip install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu118
pip install torch_geometric
conda install -c conda-forge squidpy
sudo apt-get -y install libopenjp2-7-dev libopenjp2-tools openslide-tools
```
```shell
conda create -n spared
conda activate spared
conda install pytorch torchvision torchaudio pytorch-cuda=11.8 -c pytorch -c nvidia
conda install lightning -c conda-forge
pip install torch_geometric
conda install -c conda-forge squidpy
pip install wandb
pip install wget
pip install combat
pip install opencv-python
pip install positional-encodings[pytorch]
pip install openpyxl
pip install pyzipper
pip install plotly
pip install sh
pip install sphinx
pip install -U sphinx-copybutton
pip install -U sphinx_rtd_theme
```
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