Khalil/signatures

README.md

@@ -45,20 +45,46 @@ We recommend checking out the [skeleton
 repository](https://github.com/scverse/simple-scvi) as a
 starting point for developing and deploying new models with scvi-tools.
 
-# Basic installation
+# Basic installation [Abstra]
+Clone repository
+
+```
+git clone https://github.com/owkin/deepdeconv # https
+git clone [email protected]:owkin/deepdeconv.git # ssh
+```
+
+Create an environment and install scvi-tools locally
+
+```
+conda create -n deepdeconv python=.3.9
+conda activate deepdeconv
+cd deepdeconv
+# install library in editable mode
+pip install -e ".[dev,docs,tutorials]"
+# Install additional requirements
+pip install -r requirements.txt
+```
+
+To confirm that scvi-tools was succesfully installed
+
+```
+pip show scvi-tools
+```
+
+Create an ipykernel so you can use your environment with a Jupyter notebook
 
-For conda,
 
 ```
-conda install scvi-tools -c conda-forge
+python -m ipykernel install --user --name=deepdeconv
 ```
 
-and for pip,
+Create a branch for local development
 
 ```
-pip install scvi-tools
+git checkout -b {your-branch-name}
 ```
 
+I you want to use a GPU, make sure to create a workspace with a GPU in *Abstra*.
 Please be sure to install a version of [PyTorch](https://pytorch.org/) that is compatible with your GPU (if applicable).
 
 # Resources