Drug-response data analysis (pasmopy.validation
)
- class pasmopy.validation.CancerCellLineEncyclopedia
Cancer Cell Line Encyclopedia (CCLE) https://portals.broadinstitute.org/ccle
- _drug_response_data
Pharmacologic profiles for 24 anticancer drugs across 504 cell lines.
- Type:
pandas.DataFrame
- save_activity_area(expression_ratio, classifier, drug, *, labels, config=None)
Save ActArea.
- Return type:
Examples
>>> from pasmopy.validation import CancerCellLineEncyclopedia >>> ErbB_expression_ratio = pd.read_csv( ... "https://raw.githubusercontent.com/pasmopy/breast_cancer/master/drug_response/data/ErbB_expression_ratio.csv", ... index_col=0, ... ) >>> ccle = CancerCellLineEncyclopedia() >>> for drug in ["Erlotinib", "Lapatinib"]: ... ccle.save_activity_area( ... ErbB_expression_ratio, ... {"value": ["high", "low"]}, ... drug, ... labels=["EGFR high", "EGFR low"], ... )
- save_dose_response_curve(expression_ratio, classifier, drug, *, labels, config=None, show_individual=False)
Save dose-response curves.
- Return type:
Examples
>>> from pasmopy.validation import CancerCellLineEncyclopedia >>> ErbB_expression_ratio = pd.read_csv( ... "https://raw.githubusercontent.com/pasmopy/breast_cancer/master/drug_response/data/ErbB_expression_ratio.csv", ... index_col=0, ... ) >>> ccle = CancerCellLineEncyclopedia() >>> for drug in ["Erlotinib", "Lapatinib"]: ... ccle.save_dose_response_curve( ... ErbB_expression_ratio, ... {"value": ["high", "low"]}, ... drug, ... labels=["EGFR high", "EGFR low"], ... )