Man pages for HuaZou/MyRtools
Statistic Approaches on Data Analysis
| AA_Mediation | Causal Mediation Analysis (CMA) |
| AA_PartialCC | Association Analysis by Partial Correlation Coefficient |
| AA_SimpleCC | Association Analysis by Spearman correlation coefficient |
| get_ExprSet | Building ExpressionSet Object |
| get_imputedExprSet | the new imputed ExpressionSet object |
| get_NormalizedExprSet | the new Normalized ExpressionSet object |
| get_processedExprSet | Building ExpressionSet Object with preprocess |
| get_TransformedExprSet | the new transformed ExpressionSet object |
| get_TrimedExprSet | the new filtered ExpressionSet object |
| impute-methods | Global Standard imputation |
| InstallPackage | Installation of R packages |
| intersect_feature | Returns the intersection of species and samples for the... |
| lefser | R implementation of the LEfSe method |
| normalize-methods | Total-Sum Scaling (TSS) method |
| run_ANCOM | Differential Expression Analysis by Analysis of composition... |
| run_DESeq2 | Differential Expression Analysis by DEseq2 Package |
| run_edgeR | Differential Expression Analysis by edgeR Package |
| run_impute | impute the expression profile in 'assayData' by features |
| run_LEfSe | Differential Expression Analysis by LEfSe Package |
| run_Limma | Differential Expression Analysis by limma Package |
| run_MDS | Dimensionality Reduction Analysis: Multidimensional... |
| run_OddRatio | |
| run_OrdPlot | Plot Ordination result with scatterplot |
| run_PCA | Dimensionality Reduction Analysis: Principal Component... |
| run_PCoA | Dimensionality Reduction Analysis: Principal Coordinate... |
| run_PERMANOVA | Permutational Multivariate Analysis of Variance (PERMANOVA)... |
| run_transform | Transform the expression profile in 'assayData' sample by... |
| run_trim | Trim samples or features in 'assayData' by Occurrences |
| run_tsne | Dimensionality Reduction Analysis: t-Distributed Stochastic... |
| run_Ttest | Differential Expression Analysis by T test |
| run_Ttest_Paired | Differential Expression Analysis by Paired T test |
| run_TWilcox | Differential Expression Analysis by T test or Wilcox-rank-sum... |
| run_umap | Dimensionality Reduction Analysis: Uniform Manifold... |
| run_Wilcox | Differential Expression Analysis by Wilcox-rank-sum test |
| run_Wilcox_Paired | Differential Expression Analysis by Paired Wilcox-rank-sum... |
