XenoCell

The software tool 'XenoCell' addresses the challenge of distinguishing between host and graft sequence reads in single-cell sequencing experiments involving xenografts of patient-derived biopsies (PDX). This scenario involves the presence of cells from both the host and the graft, making it difficult to deconvolve their genomic information. 'XenoCell' is introduced as a standalone pre-processing tool capable of rapidly and reliably classifying cellular barcodes originating from the host and graft. The tool's efficacy is demonstrated through applications on mixed-species cell line experiments and a publicly available PDX dataset obtained via Drop-Seq. 'XenoCell' effectively disentangles sequence reads from a diverse range of host and graft species combinations, as well as various single-cell experiment platforms.