Package: dnaEPICO 0.99.38

Introduction | Citation | Required knowledge | Probe-exclusion reference files | Installation | Extract the example Makefile | Write preprocessingMinfiEwasWater outputs to disk | Create example input files | Write SVA outputs to disk | Reuse the temporary files written in Step 1 | Write preprocessingPheno outputs to disk | Write GLM outputs to disk | Write LME outputs to disk | Generate the report from the example outputs | GLM model structure and PRS terms | Longitudinal mixed-effects structure | Makefile use | Report generation | Full exported Makefile | Makefile section guide | User configuration | Models selection and parallel run | Per-model overrides | Directories | Global parameters | Step 1 to Step 5 shared parameters | Step 4 and Step 5 modeling parameters | Step 1 parameters | Step 2 parameters | Step 3 parameters | Step 4 parameters | Step 5 parameters | Template convention | Include pipeline from dnaEPICO | Summary | Basics | Asking for help | References

Introduction | Required knowledge | Probe-exclusion reference files | Functions | preprocessingMinfiEwasWater() | svaEnmix() | preprocessingPheno() | methylationGLM() | methylationLME() | dnamReport() | Summary | Basics | Asking for help

Introduction | Citation | Required knowledge | Probe-exclusion reference files | Installation | Step 1: preprocessingMinfiEwasWater | Create example input files | Step 2: svaEnmix | Step 3: preprocessingPheno | Variables used in GLM and LME models | Summary | Basics | Asking for help | References