decontX

Decontamination of single cell genomics data

Bioconductor version: 3.23 · Package version: 1.10.0

This package contains implementation of DecontX (Yang et al. 2020), a decontamination algorithm for single-cell RNA-seq, and DecontPro (Yin et al. 2023), a decontamination algorithm for single cell protein expression data. DecontX is a novel Bayesian method to computationally estimate and remove RNA contamination in individual cells without empty droplet information. DecontPro is a Bayesian method that estimates the level of contamination from ambient and background sources in CITE-seq ADT dataset and decontaminate the dataset.

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("decontX")