Installation

Prerequisites

mrvi can be installed via PyPI.

Install Conda. We typically use the Miniconda Python distribution. Use Python version >=3.7.
Create a new conda environment:
```
conda create -n mrvi-env python=3.7
```
Activate your environment:
```
source activate mrvi-env
```

Install Python, we prefer the pyenv version management system, along with pyenv-virtualenv.
Install PyTorch. If you have an Nvidia GPU, be sure to install a version of PyTorch that supports it – scvi-tools runs much faster with a discrete GPU.

Install mrvi in one of the following ways:

Through pip:

pip install <mrvi>

Through pip with packages to run notebooks. This installs scanpy, etc.:

pip install <mrvi>[tutorials]

Nightly version - clone this repo and run:

pip install .

For development - clone this repo and run:

pip install -e .[dev,docs]