deconvR

deconvR provides a collection of functions for analyzing deconvolution of bulk samples using an atlas of reference omic signature profiles and a user-selected model.

Key Features:

• Reference Atlas Creation and Extension: Users can create or extend a reference atlas of omic signature profiles.
• Bulk Signature Simulation: Users can simulate the desired size of the bulk signature profile of the reference cell types.
• Cell-Type-Specific Methylation Atlas: The package includes a cell-type-specific methylation atlas for use in deconvolution.
• Illumina EPIC B5 Probe IDs: Included probe IDs can be used in deconvolution analyses.
• BSmeth2Probe: A function to map WGBS data to their probe IDs.

Scientific Applications:

• Bulk Sample Deconvolution: Deconvolution of bulk omic samples using reference signature profiles and a user-selected model.
• Methylation Data Analysis: Deconvolution using cell-type-specific methylation atlases and Illumina EPIC B5 probe IDs.
• WGBS Data Mapping: Mapping of whole-genome bisulfite sequencing data to probe IDs via BSmeth2Probe.

Methodology:

Deconvolution is performed using an atlas of reference omic signature profiles and a user-selected model.