Analyze FT-ICR-MS data
Project description
MetaboDirect
A comprehensive command-line based pipeline for the analysis of direct injection FT-ICR mass spectrometry data.
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
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
- ggvenn
Cytoscape
- FileTransfer
Usage
Information about the arguments can be obtaining using the option -h/--help
metabodirect -h
For more information please check the User Manual.
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
metabodirect-1.0.1.tar.gz
(3.2 MB
view hashes)
Built Distribution
Close
Hashes for metabodirect-1.0.1-py3-none-any.whl
Algorithm | Hash digest | |
---|---|---|
SHA256 | 96243f9afcf235189a5080683fc23fe46a25ba94aaf61fb8a8cc6bb47093602a |
|
MD5 | d337f1d6dfe440ec262f2af7a0360066 |
|
BLAKE2b-256 | dca595e404401db3b97fb8a2d2f10d34f3df33b6fba12affa48726250c5d91de |