| Literature DB >> 30656627 |
Jeffrey Kim1, Marcel M Daadi2,3.
Abstract
This chapter describes a pipeline for basic bioinformatics analysis of single-cell sequencing data (see Chap. 10 : Single-Cell Library Preparation). Starting with raw sequencing data, we describe how to quality check samples, to create an index from a reference genome, to align the sequences to an index, and to quantify transcript abundances. The curated data sets will enable differential expression analysis, population analysis, and pathway analysis.Entities:
Keywords: BBDuk; Bioinformatics; C1; DAVID; FASTQC; Fluidigm; Kallisto; Neural stem cells; RNA-seq; SCDE; Single cell; Single-cell RNA-seq; Single-cell analysis; Singular; Sleuth
Mesh：
Year: 2019 PMID： 30656627 PMCID： PMC6605033 DOI： 10.1007/978-1-4939-9007-8_11
Source DB: PubMed Journal: Methods Mol Biol ISSN： 1064-3745