granulator

granulator benchmarks and executes cell type deconvolution of heterogeneous tissues using bulk RNA-seq data or single cell RNA-seq expression profiles through a unified testing interface for multiple state-of-the-art deconvolution methods.

Key Features:

• Unified Testing Interface: Provides a single interface to rapidly run and compare multiple state-of-the-art deconvolution methods.
• Multi-Platform Input Support: Accepts both bulk RNA-seq data and single cell RNA-seq expression profiles for deconvolution analysis.
• Reference Data Included: Supplies data for deconvolution of peripheral blood mononuclear cells (PBMCs) into individual immune cell types.

Scientific Applications:

• Cell Type Deconvolution: Resolves cellular composition of heterogeneous tissues from bulk RNA-seq measurements.
• Immune Cell Profiling: Deconvolves peripheral blood mononuclear cells (PBMCs) into constituent immune cell types.
• Method Benchmarking: Systematically evaluates and compares performance of multiple deconvolution algorithms.

Methodology:

The package implements a unified testing interface for running and benchmarking multiple deconvolution methods; specific algorithmic details of individual deconvolution methods are not stated in the sources.