Man pages for jtlovell/limmaDE2
A pipeline for differential expression analyses in LIMMA
| counts2PCA | PCA of voom-transformed counts. |
| counts2Venn | Make venn diagrams based on significance classification |
| distGO | Compare semantic similarity of GO. |
| makeBinarySig | Convert p-values to binary significance calls |
| means4heatmap | Get group means |
| modulesByConnectivity | Find modules that have high connectivity |
| pipeDESeq2 | A pipeline for DESeq2 |
| pipeLIMMA | A pipeline for LIMMA. |
| pipeTopGO | Run gene ontology enrichment analyses |
| pqHists | P- and q-value distributions plotted side-by-side |
| reportPi0 | Get pi0 from P-values |
| testHeterosis | Bin genes by heterosis categories |
| volcanoPair | Scatter plot of log2 fold changes. |
| volcanoPlot | Volcano plot. |
| wgcna2igraph | Generate an igraph object from wgcna output |
