Scater: pre-processing, quality control, normalization and visualization of single-cell RNA-seq data in R | Zendy

Davis J. McCarthy | Zendy; Kieran R. Campbell | Zendy; Aaron T. L. Lun | Zendy; Quin F. Wills | Zendy

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Scater: pre-processing, quality control, normalization and visualization of single-cell RNA-seq data in R

Author(s) -

Davis J. McCarthy,

Kieran R. Campbell,

Aaron T. L. Lun,

Quin F. Wills

Publication year - 2016

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btw777

Subject(s) - normalization (sociology) , visualization , computer science , rna seq , software , computational biology , data mining , biology , transcriptome , genetics , gene expression , programming language , gene , sociology , anthropology

Single-cell RNA sequencing (scRNA-seq) is increasingly used to study gene expression at the level of individual cells. However, preparing raw sequence data for further analysis is not a straightforward process. Biases, artifacts and other sources of unwanted variation are present in the data, requiring substantial time and effort to be spent on pre-processing, quality control (QC) and normalization.

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