regionalpcs

regionalpcs summarizes DNA methylation data using regional principal components computed via principal components analysis within genomic regions to capture variability in methylation levels across CpGs.

Key Features:

• Regional Principal Components Computation: Principal components analysis is applied within genomic regions to summarize methylation variability across CpGs.
• Automatic Component Selection: The number of principal components is chosen using either the Marcenko-Pasteur or Gavish-Donoho method to identify relevant signal in the data.

Scientific Applications:

• DNA Methylation Data Summarization: Reduction of complex methylation data into interpretable regional principal components for downstream analysis.

Methodology:

Principal components analysis is computed within genomic regions on DNA methylation data; the number of components is determined by the Marcenko-Pasteur or Gavish-Donoho method.