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algorithm python » algorithm within (Expand Search), algorithms within (Expand Search), algorithm both (Expand Search)
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value function » rate function (Expand Search), wave function (Expand Search)
algorithm python » algorithm within (Expand Search), algorithms within (Expand Search), algorithm both (Expand Search)
python function » protein function (Expand Search)
algorithm gene » algorithm where (Expand Search), algorithm etc (Expand Search), algorithm pre (Expand Search)
value function » rate function (Expand Search), wave function (Expand Search)
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Mechanomics Code - JVT
Published 2025“…The functions were tested respectively in: MATLAB 2018a or youger, Python 3.9.4, R 4.0.3.…”
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Code
Published 2025“…We divided the dataset into training and test sets, using 70% of the genes for training and 30% for testing. We implemented machine learning algorithms using the following R packages: rpart for Decision Trees, gbm for Gradient Boosting Machines (GBM), ranger for Random Forests, the glm function for Generalized Linear Models (GLM), and xgboost for Extreme Gradient Boosting (XGB). …”
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Core data
Published 2025“…We divided the dataset into training and test sets, using 70% of the genes for training and 30% for testing. We implemented machine learning algorithms using the following R packages: rpart for Decision Trees, gbm for Gradient Boosting Machines (GBM), ranger for Random Forests, the glm function for Generalized Linear Models (GLM), and xgboost for Extreme Gradient Boosting (XGB). …”
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Expression vs genomics for predicting dependencies
Published 2024“…Cell lines missing mutation or expression data were dropped. Remaining NA values were imputed to zero. Features types are indicated by the column matrix suffixes:</p><p dir="ltr">_Exp: expression</p><p dir="ltr">_Hot: hotspot mutation</p><p dir="ltr">_Dam: damaging mutation</p><p dir="ltr">_OtherMut: other mutation</p><p dir="ltr">_CN: copy number</p><p dir="ltr">_GSEA: ssGSEA score for an MSigDB gene set</p><p dir="ltr">_MethTSS: Methylation of transcription start sites</p><p dir="ltr">_MethCpG: Methylation of CpG islands</p><p dir="ltr">_Fusion: Gene fusions</p><p dir="ltr">_Cell: cell tissue properties</p><p dir="ltr"><br></p><p dir="ltr">NormLRT.csv: the normLRT score for the given perturbation</p><p dir="ltr"><br></p><p dir="ltr">RFAdditionScore.csv: similar to ENAdditionScore, but using a random forest model.…”