@inbook{83bc7ada28134863b2599866be488c17,
title = "Bioinformatics analysis of single-cell RNA-seq raw data from iPSC-derived neural stem cells",
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.",
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",
author = "Jeffrey Kim and Daadi, {Marcel M.}",
note = "Publisher Copyright: {\textcopyright} 2019, Springer Science+Business Media, LLC, part of Springer Nature.",
year = "2019",
doi = "10.1007/978-1-4939-9007-8_11",
language = "English (US)",
series = "Methods in Molecular Biology",
publisher = "Humana Press",
pages = "145--159",
booktitle = "Methods in Molecular Biology",
address = "United States",
}