ADTGP: correcting single-cell antibody sequencing data using Gaussian process regression

Abstract

Summary: We present ADTGP, an R package that uses Gaussian process regression to correct droplet-specific technical noise in single-cell protein sequencing data. ADTGP improves the interpretability of the data by modeling the distribution of protein expression, conditioned on equal isotype control counts across cells. ADTGP is written in R and needs only the protein raw counts, isotype control raw counts, and a design matrix to run.

Availability and implementation: ADTGP can be installed from https://github.com/northNomad/ADTGP. It depends on Stan and the R package 'cmdstanr'.