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.idea
.idea
 
 
.ipynb_checkpoints
.ipynb_checkpoints
 
 
__pycache__
__pycache__
 
 
data
data
 
 
flux_images_pdf
flux_images_pdf
 
 
models
models
 
 
.gitignore
.gitignore
 
 
1) determine growthrates from images.ipynb
1) determine growthrates from images.ipynb
 
 
10) compute wasserstein.py
10) compute wasserstein.py
 
 
11) plot flux histograms for flux maps.py
11) plot flux histograms for flux maps.py
 
 
12) wasserstein bars.py
12) wasserstein bars.py
 
 
2) check data.py
2) check data.py
 
 
3) configure models (cQuellen2024).ipynb
3) configure models (cQuellen2024).ipynb
 
 
4) parse polytope.py
4) parse polytope.py
 
 
5) draw uniform samples.py
5) draw uniform samples.py
 
 
5b) visualize uniform samples.py
5b) visualize uniform samples.py
 
 
6) compute ESS.py
6) compute ESS.py
 
 
7) estimate beta.py
7) estimate beta.py
 
 
7) plot resulting distributions.py
7) plot resulting distributions.py
 
 
7b) importance sampling for estimating beta.py
7b) importance sampling for estimating beta.py
 
 
8) draw boltzmann samples.py
8) draw boltzmann samples.py
 
 
8b) check boltzmann samples.py
8b) check boltzmann samples.py
 
 
8c) compute monte carlo error.py
8c) compute monte carlo error.py
 
 
9) thin samples for memory efficiency.py
9) thin samples for memory efficiency.py
 
 
FBA_analysis_max_growth_rate.ipynb
FBA_analysis_max_growth_rate.ipynb
 
 
FBA_analysis_minimal_uptake.ipynb
FBA_analysis_minimal_uptake.ipynb
 
 
README.md
README.md
 
 
boltzmann_stats.txt
boltzmann_stats.txt
 
 
helpers.py
helpers.py
 
 
maxentResults+meas.pdf
maxentResults+meas.pdf
 
 
maxentResults+meas.png
maxentResults+meas.png
 
 
maxentResults+meas.svg
maxentResults+meas.svg
 
 
maxentResults.pdf
maxentResults.pdf
 
 
maxentResults.png
maxentResults.png
 
 
maxentResults.svg
maxentResults.svg
 
 
uniform_stats.txt
uniform_stats.txt
 
 

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MaxEntFlux

Code, models and data for 'Combining Knowledge about Metabolic Networks and Single-cell Data with Maximum Entropy'.

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