Table of contents:
There are currently four main workflows that are supported by MethBat:
- Rare methylation analysis - Identify regions in a single dataset exhibiting a "rare" methylation patterns relative to a collection of background datasets; requires pre-defined regions such as all known CpG islands.
- Cohort methylation analysis - Identify regions exhibiting different methylation patterns between case and control datasets; requires pre-defined regions such as all known CpG islands.
- Segmentation - Segment (or divide) CpGs for an individual dataset into regions with a shared methylation pattern; no pre-defined regions required.
- Signature generation - Identify regions exhibiting different methylation patterns between case and control datasets; no pre-defined regions required.
The following upstream processes are supported as inputs to MethBat:
- pb-CpG-tools - both
modelandcountmodes are supported, but default parameters are tuned formodelmode