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 (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