radipop_scripts
Scripts to train and validate random forest model for HVPG prediction
Science Score: 44.0%
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Low similarity (5.9%) to scientific vocabulary
Repository
Scripts to train and validate random forest model for HVPG prediction
Basic Info
- Host: GitHub
- Owner: menchelab
- Language: Jupyter Notebook
- Default Branch: master
- Size: 20.3 MB
Statistics
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Radiomics-based prediction of portal hypertension severity and of liver-related events using routine CT scans of patients with cirrhosis
Hepatic venous pressure gradient (HVPG) is the reference standard to diagnose portal hypertension. Elevated HVPG is predictive of hepatic decompensation and mortality [Ripoll, 2007], and its measurement is indicated for diagnosis, therapy monitoring and risk stratification. However, HVPG measurement is invasive, relatively expensive and requires specialized medical infrastructure and expertise. Therefore, a non-invasive alternative is highly desirable.
In this project, we developed a radiomics-based model for the non-invasive determination of HVPG > 10mmHg (clinically significant portal hypertension, CSPH) from abdominal CT scans.
This work is published in <<<>>>
Code base for analysis
This codebase is organized in 3 main folders:
scripts_0preprocessing
- clean the metadata
- preprocess raw images
- extract radiomics features
scripts_1ml
- explore the feature space
- feature selection and batch correction
- train and optimize a random forest classifier to predict for HVPG ≥10 mmHg
- evaluate performance of the model ### scripts_cox (Lorenz Balcar/Bernhard Scheiner)
- preform cox regression analysis for prognosis endpoints
References
Ripoll, C. et al. Hepatic venous pressure gradient predicts clinical decompensation in patients with compensated cirrhosis. Gastroenterology 133, 481–488 (2007)
Owner
- Name: Menche Lab
- Login: menchelab
- Kind: organization
- Location: Vienna, Austria
- Website: https://menchelab.com/
- Twitter: menchelab
- Repositories: 11
- Profile: https://github.com/menchelab
Citation (CITATION.cff)
cff-version: 1.2.0 message: "If you use this software, please cite it as below." authors: - family-names: "Sin" given-names: "Celine" orcid: "https://orcid.org/0000-0002-4975-4618" title: "radipop_analy" version: 1.0.0 doi: ????/zenodo???? date-released: 2022-11-10 url: "https://github.com/celinesin/radipop_analy"
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