Man pages for TomMayo/M3Ddevel
(development for M3D) Identifies differentially methylated regions across testing groups
| CpGsDemo | Toy data for the package - 1000 CpG regions to be tested in a... |
| determineGroupComps | Creates strings of sample pair comparisons |
| findComps | Finds columns in the M3D test-statistic matrix |
| M3Ddevel | 'M3Ddevel': Uses the M3D method to find DMRs in bisufite... |
| M3D-package | Non-parametric statistical testing |
| M3D_Para | Computes the components of the M3D test-statistic over all... |
| M3D_Para_lite | Computes the components of the M3D test-statistic over all... |
| M3D_Single | Computes the components of the M3D test-statistic over one... |
| M3D_Wrapper | Computes the components of the M3D test-statistic over all... |
| M3D_Wrapper_lite | Computes the components of the M3D test-statistic over all... |
| median_freq | Finds the median |
| medianFreq | Finds the median |
| MMDlistDemo | Toy data for the package - the output of the M3D_Wrapper... |
| PDemo | Toy data for the package - the output of the pvals function. |
| plotMethProfile | Plots methylation profiles over a specific region |
| pvals | Computes p-values |
| pvals_lite | Computes p-values |
| readENCODEdata | Reads in ENCODE RRBS data |
| rrbsDemo | Toy data for the package - methylation data for cytosines... |
