Differential Gene Correlation Analysis

adjustPVals | Adjusts a numeric vector of p-values. |

ages_darmanis | Brain sample ages vector. |

bigEmpPVals | Use speed-optimized sorting to calculate p-values observed... |

corMats-class | An S4 class to store correlation matrices and associated... |

darmanis | Single-cell gene expression data from different brain cell... |

dCorAvg | Get average empirical differential correlations. |

dCorClass | Classify differential correlations. |

dCorMats | Finds differential correlations between matrices. |

dCorrs | Differential correlation between two conditions. |

dcPair-class | S4 class for pairwise differential correlation matrices and... |

dcTopPairs | Creates a data frame for the top differentially correlated... |

ddcorAll | Calls the DGCA pairwise pipeline. |

ddcorAllParallel | Calls the DGCA pairwise pipeline, splitting input matrix into... |

ddcorAllParallelWorker | Worker thread for ddcorAllParallel (internal function). |

ddcorFindSignificant | Find groups of differentially correlated gene symbols. |

ddcorGO | Gene ontology of differential correlation-classified genes. |

ddMEGENA | Integration function to use MEGENA to perform network... |

ddplot | Create a heatmap showing the correlations in two conditions. |

design_mat | Design matrix of cell type specifications of the single-cell... |

DGCA | DGCA: An R package for Differential Gene Correlation Analysis |

extractModuleGO | Extract results from the module GO analysis |

filterGenes | Filter rows out of a matrix. |

findGOTermEnrichment | Find GO enrichment for a gene vector (using GOstats). |

getCors | Compute matrices necessary for differential correlation... |

getDCorPerm | Get permuted groupwise correlations and pairwise differential... |

getDCors | Get groupwise correlations and pairwise differential... |

getGroupsFromDesign | Split input matrix(es) based on the design matrix. |

getQValue | Calculates qvalues for any kind of data, failing gracefully.... |

makeDesign | Create a design matrix from a character vector. |

matCorr | Calculate a correlation matrix. |

matCorSig | Calculate correlation matrix p-values. |

matCorSig.fuzz | Calculate correlation matrix p-values, adding a small noise... |

matNSamp | Find the number of non-missing values. |

moduleDC | Calculate modular differential connectivity (MDC) |

moduleGO | Perform module GO-trait correlation |

pairwiseDCor | Calculate pairwise differential correlations. |

permQValue | Calculate q-values from DGCA class objects based on... |

plotCors | Plot gene pair correlations in multiple conditions. |

plotGOOneGroup | Plot results from a hypergeometric enrichment test for one... |

plotGOTwoGroups | Plot results from a hypergeometric enrichment test to compare... |

plotModuleGO | Plot extracted results from module-based GO enrichment... |

plotVals | Creates a dotplot of the overall values for an individual... |

switchGenesToHGCN | Switches a gene vector to cleaned HGNC symbols. |

topDCGenes | Ranks genes by their total number of differentially... |

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