Installation

pypi_badge

MetaboDirect can be installed directly from PyPi using:

pip install metabodirect

Additionally it can be installed from source by cloning its GitHub repository:

git clone https://github.com/Coayala/MetaboDirect.git
cd MetaboDirect
python setup.py install

Required modules

MetaboDirect requires Python (3.5 and above), R (4 and above) and

Cytoscape (3.8 and above) with the following libraries/modules:

Python

  • argparse

  • numpy

  • pandas (any version previous to 2.0)

  • seaborn

  • more-itertools

  • py4cytoscape

  • statsmodels

R

  • tidyverse

  • RColorBrewer

  • vegan

  • ggnewscale

  • ggpubr

  • ggvenn

  • KEGGREST

  • factoextra

  • UpSetR

  • pmartR (for normalization tests)

  • SYNCSA

Cytoscape

  • FileTransfer