Man pages for PeteHaitch/MethylationTuples
Tools for analysing methylation patterns at genomic tuples
| collapseStrand | Collapse a 'MethPat' object by strand. |
| cometh | Estimate within-sample, within-fragment co-methylation using... |
| filter-MBias-method | Filter MBias |
| filterOutVariants | Filter out variants from 'MethPat' object. |
| findMTuples | Find tuples of methylation loci of a given size in a... |
| getCoverage-MethPat-method | Compute sequencing coverage of m-tuples. |
| MBias-class | MBias class |
| MethInfo-class | MethInfo objects |
| methinfo-set | # http://r-pkgs.had.co.nz/man.html). |
| methLevelCor | Compute within-sample correlations of pairs of methylation... |
| methLevel-MethPat-method | Compute methylation levels. |
| MethPat-class | MethPat instances |
| MethylationTuples-package | Tools for analysing methylation patterns at genomic tuples. |
| MTuples-class | MTuples objects |
| MTuplesList-class | MTuplesList objects |
| patternFreqs | A naive estimate of the frequency of methylation patterns. |
| readMBias | Read Bismark's M-bias file. |
| readMethtuple | Read '.tsv' output files from 'methtuple' software. |
