Demuxafy: improvement in droplet assignment by integrating multiple single-cell demultiplexing and doublet detection methods
| Title: | Demuxafy: improvement in droplet assignment by integrating multiple single-cell demultiplexing and doublet detection methods |
|---|---|
| Authors: | Drew Neavin; Anne Senabouth; Himanshi Arora; Jimmy Tsz Hang Lee; Aida Ripoll-Cladellas; sc-eQTLGen Consortium; Lude Franke; Shyam Prabhakar; Chun Jimmie Ye; Davis J. McCarthy; Marta Melé; Martin Hemberg; Joseph E. Powell |
| Source: | Genome Biology, Vol 25, Iss 1, Pp 1-24 (2024) |
| Publisher Information: | BMC |
| Publication Year: | 2024 |
| Collection: | Directory of Open Access Journals: DOAJ Articles |
| Subject Terms: | Single-cell analysis; Genetic demultiplexing; Doublet detecting; Biology (General); QH301-705.5; Genetics; QH426-470 |
| Description: | Recent innovations in single-cell RNA-sequencing (scRNA-seq) provide the technology to investigate biological questions at cellular resolution. Pooling cells from multiple individuals has become a common strategy, and droplets can subsequently be assigned to a specific individual by leveraging their inherent genetic differences. An implicit challenge with scRNA-seq is the occurrence of doublets—droplets containing two or more cells. We develop Demuxafy, a framework to enhance donor assignment and doublet removal through the consensus intersection of multiple demultiplexing and doublet detecting methods. Demuxafy significantly improves droplet assignment by separating singlets from doublets and classifying the correct individual. |
| Document Type: | article in journal/newspaper |
| Language: | English |
| Relation: | https://doi.org/10.1186/s13059-024-03224-8; https://doaj.org/toc/1474-760X; https://doaj.org/article/7209fadf8e984cfb87325f01f83f0d88 |
| DOI: | 10.1186/s13059-024-03224-8 |
| Availability: | https://doi.org/10.1186/s13059-024-03224-8; https://doaj.org/article/7209fadf8e984cfb87325f01f83f0d88 |
| Accession Number: | edsbas.C52B7DB2 |
| Database: | BASE |