Alevin efficiently estimates accurate gene abundances from dscRNA-seq data

We introduce alevin, a fast end-to-end pipeline to process droplet-based single-cell RNA sequencing data, performing cell barcode detection, read mapping, unique molecular identifier (UMI) deduplication, gene count estimation, and cell barcode whitelisting. Alevin’s approach to UMI deduplication con...

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Bibliographic Details
Published in:	Genome Biology Vol. 20; no. 1; p. 65
Main Authors:	Srivastava, Avi, Malik, Laraib, Smith, Tom, Sudbery, Ian, Patro, Rob
Format:	Journal Article
Language:	English
Published:	London BioMed Central 27.03.2019 Springer Nature B.V BMC
Subjects:	Algorithms Animal Genetics and Genomics Animals Bioinformatics Biomedical and Life Sciences Cellular barcode Datasets DNA Barcoding, Taxonomic Evolutionary Biology Gene expression Gene mapping genes Genomes Genomics Human Genetics Humans Life Sciences Method Mice Microbial Genetics and Genomics nucleotide sequences pipelines Plant Genetics and Genomics Quantification Ribonucleic acid RNA sequence analysis Sequence Analysis, RNA Single-Cell Analysis Single-cell RNA-seq Software Transcription UMI deduplication Cellular barcode UMI deduplication Quantification Single-cell RNA-seq
ISSN:	1474-760X, 1474-7596, 1474-760X
Online Access:	Get full text
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