decontX

decontX implements a Bayesian method to computationally estimate and remove RNA contamination in individual cells from single-cell RNA-seq data without requiring empty droplet information.

Key Features:

• Bayesian Decontamination: Estimates and removes RNA contamination in individual cells using a novel Bayesian statistical framework.
• No Empty Droplet Requirement: Performs decontamination without needing empty droplet information as input.
• Single-Cell RNA-seq Support: Specifically processes and decontaminates single-cell RNA sequencing data.

Scientific Applications:

• Single-Cell Transcriptomics: Removes ambient RNA contamination to improve accuracy of gene expression profiles in individual cells.
• Contamination Profiling: Estimates the level and source of RNA contamination present in droplet-based single-cell experiments.

Methodology:

decontX uses a Bayesian method to computationally estimate and remove RNA contamination in individual cells.