installation.rst

Installation

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
• seaborn
• more-itertools
• py4cytoscape
• statsmodels

R

• tidyverse
• RColorBrewer
• vegan
• ggnewscale
• ggpubr
• ggvenn
• ggrepel
• KEGGREST
• factoextra
• UpSetR
• pmartR (for normalization tests)
• SYNCSA

Cytoscape

• FileTransfer