scSNPdemux: a sensitive demultiplexing pipeline using single nucleotide polymorphisms for improved pooled single-cell RNA sequencing analysis

scSNPdemux: a sensitive demultiplexing pipeline using single nucleotide polymorphisms for improved pooled single-cell RNA sequencing analysis

Abstract Background Here we present scSNPdemux, a sample demultiplexing pipeline for single-cell RNA sequencing data using natural genetic variations in humans. The pipeline requires alignment files from Cell Ranger (10× Genomics), a population SNP database and genotyped single nucleotide polymorphi...

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Bibliographic Details
Main Authors: John K. L. Wong, Lena Jassowicz, Christel Herold-Mende, Martina Seiffert, Jan-Philipp Mallm, Peter Lichter, Marc Zapatka
Format: Article
Language:English
Published: BMC 2023-08-01
Series:BMC Bioinformatics
Subjects:
Single-cell
Sample pooling
Sample demultiplexing
Single nucleotide polymorphisms
Online Access:https://doi.org/10.1186/s12859-023-05440-8

Internet

https://doi.org/10.1186/s12859-023-05440-8

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