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
- seaborn
- more-itertools
- py4cytoscape
R
- tidyverse
- RColorBrewer
- vegan
- ggnewscale
- ggpubr
- vegan
- KEGGREST
- factoextra
- UpSetR
- pmartR (for normalization tests)
- SYNCSA
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-0.2.2.tar.gz
(3.2 MB
view hashes)
Built Distribution
Close
Hashes for metabodirect-0.2.2-py3-none-any.whl
Algorithm | Hash digest | |
---|---|---|
SHA256 | 1d04fbb88adfb05b3066774ee0066ebba1ca19d9e32056a628469f5997a06fb7 |
|
MD5 | 59bfad8e178b763e44f90d454d3106b9 |
|
BLAKE2b-256 | 128e955f142947290b6202db1a92bcaf0ecaf90a0f640046e297093a8804ca0f |