| CpGassoc-package | Association Between Methylation and a Phenotype of Interest |
| annotation | Sample data from 'CpGassoc' |
| cpg.assoc | Association Analysis Between Methylation Beta Values and Phenotype of Interest |
| cpg.combine | Combine various objects of class '"cpg"' |
| cpg.everything | Multi-Task function |
| cpg.everything.character | Multi-Task function |
| cpg.everything.complex | Multi-Task function |
| cpg.everything.logical | Multi-Task function |
| cpg.everything.matrix | Multi-Task function |
| cpg.everything.numeric | Multi-Task function |
| cpg.GC | cpg.GC and methods for output of function |
| cpg.length | Information on miscellaneous other functions |
| cpg.perm | Perform a Permutation Test of the Association Between Methylation and a Phenotype of Interest |
| cpg.qc | Performs quality control on Illumina data. |
| cpg.work | Does the analysis between the CpG sites and phenotype of interest |
| CpGassoc | Association Between Methylation and a Phenotype of Interest |
| cpgassocsummary | Information on miscellaneous other functions |
| design | Create full and reduced design matrices for the cpg.assoc function. |
| design.data.frame | Create full and reduced design matrices for the cpg.assoc function. |
| design.NULL | Create full and reduced design matrices for the cpg.assoc function. |
| manhattan | Create a manhattan plot |
| manhattan.reflect | Create a Reflective Manhattan plot |
| plot.cpg | Methods for object of class '"cpg"' |
| plot.cpg.perm | Methods for object of class '"cpg.perm"'. |
| pointsizefunction | Information on miscellaneous other functions |
| print.cpg | Methods for object of class '"cpg"' |
| print.cpg.gc | cpg.GC and methods for output of function |
| print.cpg.perm | Methods for object of class '"cpg.perm"'. |
| print.cpg.perm.gc | cpg.GC and methods for output of function |
| samplecpg | Sample data from 'CpGassoc' |
| samplepheno | Sample data from 'CpGassoc' |
| scatterplot | Plot beta values of individual CpG sites against the independent variable. |
| sort.cpg | Methods for object of class '"cpg"' |
| sort.cpg.perm | Methods for object of class '"cpg.perm"'. |
| summary.cpg | Methods for object of class '"cpg"' |
| summary.cpg.perm | Methods for object of class '"cpg.perm"'. |