Man pages for MIRA
Methylation-Based Inference of Regulatory Activity
| addMethPropCol | Add column for proportion of methylation |
| aggregateMethyl | Aggregate methylation data to get a summary methylation... |
| bigBinDT1 | DNA methylation data for the "Applying MIRA to a Biological... |
| bigBinDT2 | DNA methylation data for the "Applying MIRA to a Biological... |
| binRegion | Divide region into similarly sized bins. |
| BSBinAggregate | Bins regions and aggregates methylation data across the... |
| BSreadBiSeq | Read in files from biseq meth caller |
| bsseqToDataTable | Convert a BSseq object to data.table format for MIRA. |
| calcMIRAScore | Score methylation profile based on its shape |
| exampleAnnoDT1 | A data.table with annotation for a bisulfite sample. |
| exampleAnnoDT2 | Annotation data for the "Applying MIRA to a Biological... |
| exampleBins | A data.table with artificial binned methylation data |
| exampleBSDT | A data.table containing DNA methylation data. |
| exampleBSseqObj | A small BSseq object. |
| exampleRegionSet | A Granges object with Nrf1-binding regions. |
| MIRA | Methylation-based Inference of Regulatory Activity (MIRA) |
| plotMIRAProfiles | Plot summary methylation profile |
| plotMIRAScores | Plot MIRA scores and compare different conditions |
| rbindNamedList | Combine data.tables from a named list into one big data.table... |
| SummarizedExperimentToDataTable | Make MIRA-compatible data.tables using information from... |
