A framework for survival prediction and analysis of ICGC datasets
Random Survival Forest
The ICGC-survival package provides an easy oppurtinity to perform survival prediction on ICGC datasets.
$ pip install icgc-survival
- Source Code: https://github.com/julianspaeth/icgc-survival
>>> from download_helper import login, download_file_by_project >>> from feature_creator import extract_gene_affected_counts >>> from label_creator import extract_survival_labels >>> token = login(username, password) >>> df = download_file_by_project(token=token, filetype="simple_somatic_mutation", release=28, project_code="ALL-US") >>> ssm_gene_affected_counts = extract_gene_affected_counts(df) >>> labels, features = extract_survival_labels(ssm_gene_affected_counts, donors) >>> x, x_test, y, y_test = train_test_split(features, labels, shuffle=True, test_size=0.33, random_state=10) ...
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