Man pages for kokonech/InTAD
Search for correlation between epigenetic signals and gene expression in TADs
| combineInTAD | Preparation for correlation analysis |
| combineWithLoops | Preparation for correlation analysis via loops |
| enhSel | Enhancer signals subset detected from medulloblatoma samples |
| enhSelGR | Genomic coordiantes of enhancer signals subet |
| exprs | Gene expression counts table |
| filterGeneExpr | Function to filter gene expression |
| findCorFromLoops | Function to perfrom correlation analysis via loops. |
| findCorrelation | Function to perfrom correlation analysis in TADs |
| fnSE | Preparation for correlation analysis for a signal |
| geneCoords | Gene coords GRanges |
| get.enr.bg.normfit | Function to estimate gene expression |
| InTADSig | The InTADSig Class |
| loadSigInTAD | Load InTADSig object from text files |
| loopsDfSel | Data frame containing coordinates of loops |
| mbAnnData | Data frame containing information about samples |
| newSigInTAD | Create InTADSig object |
| plotCorAcrossRef | Function to plot correlation across genome |
| plotCorrelation | Function to plot correlation |
| rpkmCountsSel | Gene expression subset from medulloblastoma samples |
| sigCoords | Signal coords GRanges |
| signals | Signal values table |
| tadGR | Genomic coordiantes of topologically associated domains |
| txsSel | Genomic coordiantes of genes subset |
