Man pages for jtcasemajor/GENEXPRESSO
Comparison of DEG and coexpression tools
| Cor.square.matrix | Computing a square matrix of correlation coefficients |
| DEG_alternative | Takes the results of DEG_GEOlimma and DEG_limma and extracts... |
| DEG_GEOlimma | Differentially expressed genes analysis through the limma... |
| DEG_limma | Differentially expressed genes analysis through the limma... |
| Make.adjacencyPVal | Computing an adjacency table with Pvalues associated to a... |
| Make.adjacency.table | Computing an adjacency table |
| make_designMatrix | Creates a Model matrix. |
| Make.df.graph | Computing a dataframe of usable format for Network plotting... |
| Make.full.adjacency | Computing an adjacency table with or without Pvalues, with... |
| PCA_tools | Compute a PCA of the different tool used in normalization and... |
| relations.comparison | Produce an igraph network with different colors to compare... |
| Simul.data | Create a dataset |
| TOM.square.matrix | Computing a square matrix of Topological Overlap |
| tools.DEG.Microarrays | Compute the pvalues of genes being up- and down-regulated for... |
| tools.DEG.Microarrays.merge | Merge the DEG Pvalues for each tool used by... |
| tools.DEG.Nanostring | Compute the pvalues of genes being up and downregulated for... |
| tools.DEG.Nanostring.merge | Merge the DEG Pvalues for each tool used by... |
| tools.DEG.RNAseq | Compute the pvalues of genes being differentially expressed... |
| tools.DEG.RNAseq.merge | Merge the DEG Pvalues for each tool used by tools.DEG.RNAseq... |
| tools.norm.Nanostring | Normalize a Nanostring dataset |
| Upset.Binary.Dataframe | Compute a usable matrix to make an Upset plot |
| wilcoxDEG | Multiple Wilcoxons tests for each row of a dataframe |
