https://github.com/menchelab/marco
Code for the study conducted by Brunner et al.
https://github.com/menchelab/marco
Last synced: 10 months ago
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Code for the study conducted by Brunner et al.
- Host: GitHub
- URL: https://github.com/menchelab/marco
- Owner: menchelab
- License: mit
- Created: 2020-01-14T11:42:23.000Z (over 6 years ago)
- Default Branch: master
- Last Pushed: 2020-09-29T14:33:26.000Z (over 5 years ago)
- Last Synced: 2025-03-30T17:46:24.631Z (about 1 year ago)
- Language: Jupyter Notebook
- Homepage:
- Size: 6 MB
- Stars: 0
- Watchers: 4
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# The PI3K pathway preserves metabolic health by driving MARCO dependent lipid uptake of adipose tissue macrophages
## Study authors
Julia S Brunner, Andrea Vogel, Alexander Lercher, Michael Caldera, Ana Korosec, Marlene Pühringer, Melanie Hofmann, Alexander Hajto, Markus Kieler, Lucia Quemada Garrido, Martina Kerndl, Mario Kuttke, Ildiko Mesteri, Maria W Górna, Marta Kulik, Paulina M Dominiak, Amanda E Brandon, Emma Estevez, Casey L Egan, Florian Gruber, Martina Schweiger, Jörg Menche, Andreas Bergthaler, Thomas Weichhart, Kristaps Klavins, Mark A Febbraio, Omar Sharif, Gernot Schabbauer
Correspondence to: gernot.schabbauer@meduniwien.ac.at and omar.sharif@meduniwien.ac.at.
## Data availability
All data and code needed to reproduce the analysis and plots regarding metabolomics can be found within the /data and /code folders of this github repository
## Code summary
Several notebooks are provided, showing the analysis presented in the paper and how the figures were generated.
## Installation and system requirements
Python packages used for analysis
All code written for this program was in python 3.7.2
Python version: 3.7.2
Python packages included:
numpy [v 1.16.0]
scipy [v 1.2.0]
pandas [v 0.24.0]
sklearn [v 0.20.3]
matplotlib [v 3.0.2]
statsmodels [v 0.10.1]
seaborn [0.9.0]
### System requirements
Code was written and execuded on a MacBookPro
CPU: Intel Core i5
Memory: 8GB
Graphics: Intel Iris Graphics 6100
MacOS: 10.14.3
### Installation instructions
All python packages should be easily being installed via pip [https://pypi.org/project/pip/]
e.g. pip install
Typically time to install all packages should be less than 30min depending on the amount of previously installed packages.
### Code execution time
Running all three notebooks should take less than 5min (given the same or a similar system)