Man pages for ThomasCarroll/soGGi
Visualise ChIP-seq, MNase-seq and motif occurrence as aggregate plots Summarised Over Grouped Genomic Intervals
| chipExampleBig | Example ChIPprofiles |
| ChIPprofile | The soggi function and ChIPprofile object. |
| findconsensusRegions | Plot coverage of points or regions. |
| groupByOverlaps | Create GRangeslist from all combinations of GRanges |
| ik_Example | Example Ikaros peaksets |
| ik_Profiles | Example Ikaros signal over peaksets |
| manipulateObjects | Join, subset and manipulate ChIPprofile objects |
| normalise | Normalise ChIPprofiles |
| normaliseQuantiles | Normalise quantile |
| Ops | Arithmetic operations |
| orientBy | Set strand by overlapping or nearest anchor GRanges |
| plotRegion | Plot regions |
| pwmCov | Example motif coverage |
| pwmToCoverage | PWM hits and motif scores as an RLElist |
| singleGRange | A single GRange |
