WebDGEobj.utils-package: DGEobj.utils Package Overview: convertCounts: Convert count matrix to CPM, FPKM, FPK, or TPM: extractCol: Extract a named column from a series of df or matrices: lowIntFilter: Apply low intensity filters to a DGEobj: rsqCalc: Calculate R-squared for each gene fit: runContrasts: Build contrast matrix and calculate contrast ... WebMay 19, 2024 · DGEobj.utils: An Example Workflow John R. Thompson 2024-05-19. 1 Introduction and Setup. 1.1 Demonstration Dataset: Rat Liver Slice Compound …

DGEobj.utils/MD5 at master · cran/DGEobj.utils · GitHub

WebA collection of algorithms and functions to aid statistical modeling. Includes limiting dilution analysis (aka ELDA), growth curve comparisons, mixed linear models, heteroscedastic regression, inverse-Gaussian probability calculations, Gauss quadrature and a secure convergence algorithm for nonlinear models. Also includes advanced generalized linear … WebAug 4, 2024 · This is a complement/cohort to the 'DGEobj' package that provides a flexible container to manage and annotate Differential Gene Expression analysis results. DGEobj.utils: Differential Gene Expression (DGE) Analysis Utility Toolkit gasoline only labels

R: Build contrast matrix and calculate contrast fits

WebMay 8, 2014 · DGEobj.utils-package: DGEobj.utils Package Overview; extractCol: Extract a named column from a series of df or matrices; lowIntFilter: Apply low intensity filters to a DGEobj; rsqCalc: Calculate R-squared for each gene fit; runContrasts: Build contrast matrix and calculate contrast fits; runEdgeRNorm: Run edgeR normalization on DGEobj WebrunContrasts {DGEobj.utils} R Documentation: Build contrast matrix and calculate contrast fits Description. Takes a DGEobj and a named list of contrasts to build. The DGEobj must contain a limma Fit object and associated designMatrix. Returns the DGEobj with contrast fit(s), contrast matrix, and topTable/topTreat dataframes added. david french facebook