DaMiR.Allplot | Quality assessment and visualization of expression data |
DaMiR.Clustplot | Expression data clustering and heatmap |
DaMiR.corrplot | Correlation Plot |
DaMiR.EnsembleLearning | Build Classifier using 'Staking' Ensemble Learning strategy. |
DaMiR.EnsembleLearning2cl | Build a Binary Classifier using 'Staking' Learning strategy. |
DaMiR.EnsembleLearning2cl_Predict | Predict new samples class |
DaMiR.EnsembleLearning2cl_Test | Test Binary Classifiers |
DaMiR.EnsembleLearning2cl_Training | Train a Binary Classifier using 'Staking' Learning strategy. |
DaMiR.EnsembleLearningNcl | Build a Multi-Class Classifier using 'Staking' Learning strategy. |
DaMiR.FBest | Select best predictors to build Classification Model |
DaMiR.FReduct | Remove highly correlated features, based on feature-per-feature correlation. |
DaMiR.FSelect | Feature selection for classification |
DaMiR.FSort | Order features by importance, using RReliefF filter |
DaMiR.goldenDice | Generate a Number to Set Seed |
DaMiR.makeSE | Import RNA-Seq count data and variables |
DaMiR.MDSplot | Plot multidimentional scaling (MDS) |
DaMiR.normalization | Filter non Expressed and 'Hypervariant' features and Data Normalization |
DaMiR.sampleFilt | Filter Samples by Mean Correlation Distance Metric |
DaMiR.SV | Identification of Surrogate Variables |
DaMiR.SVadjust | Remove variable effects from expression data |
DaMiR.transpose | Matrix transposition and replacement of '.' and '-' special characters |
data_min | Example gene-expression dataset for DaMiRseq package |
data_norm | A dataset with a normalized matrix to test several DaMiRseq functions: sample data are a subset of Genotype-Tissue Expression (GTEx) RNA-Seq database (dbGap Study Accession: phs000424.v6.p1) |
data_reduced | Example gene-expression dataset for DaMiRseq package |
data_relief | Example ranking dataset for DaMiRseq package |
df | Example gene-expression dataset for DaMiRseq package |
SE | Example gene-expression dataset for DaMiRseq package |
selected_features | Example gene-expression dataset for DaMiRseq package |
SEtest_norm | A sample dataset with a normalized count matrix for "testthat" functions. |
sv | Example Surrogate Variables dataset for DaMiRseq package |