miblab-dl 0.0.3

Python API for miblab's trained deep-learning models

miblab-dl

Python API for miblab's trained deep-learning models

Installation in a working environment

If you are working in an existing environment with pytorch already installed, then all you need is this:

pip install miblab-dl

Installation from scratch

If you start from scratch, first create a virtual environment, activate it and make sure you have the latest pip version.

On Windows:

python -m venv myenv
myenv/Scripts/activate
python -m pip install --upgrade pip

On Mac or Linux:

python -m venv myenv
source myenv/bin/activate
python -m pip install --upgrade pip

Now install pytorch in your environment:

pip install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu118

Then install the miblab-dl package:

pip install miblab-dl

Usage

You can import miblab-dl functionality in a python script like this:

import miblab_dl as dl

Then to compute fat and water maps from numpy arrays representing in_phase and opposed_phase Dixon images:

fat, water = dl.fatwater(opposed_phase, in_phase)