Dylan H. Ross and Jang Ho Cho
lipydomics is a Python package for performing standard lipidomics analysis protocols on data in an efficient and
reproducible fashion. The primary modules in the package are data, stats, plotting, identification and
interactive. The data module is responsible for storing lipidomics datasets, along with their associated metadata
and computed statistics. The stats module contains functions for computing statistics on a lipydomics Dataset
instance and the plotting module has functions for generating various plots using computed statistics or the data
itself. The identification module has functions for identifying lipid features using different levels of information.
The interactive module provides a more user-friendly text-based interface for performing lipidomics data analysis
for those who are not as familiar/comfortable with the more flexible Python API.
Documentation for the lipydomics API, organized by module, is available separately in api.md. An example of
a complete scripted analysis is included in example_standard_analysis.py. An additional
example analysis (executed in a Jupyter notebook) is available here.
Documentation for the lipydomics.interactive module is available separately in interactive.md. A
complete example demonstrating use of the interactive module (executed in a Jupyter notebook) is also available
here.
If you have any questions or suggestions, or notice any bugs please feel free to contact dhross92@uw.edu or file an issue.
This software is made available under the MIT license. We ask that if you use this package in published work, please cite our paper.