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This package contains a Bioconductor ExpressionSet from Trapnell et al. (2014) paper that performed a time-series experiment of bulk and single cell RNA-Seq at four time points in differentiated primary human myoblasts (GSE52529)

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ReadMe.md

trapnell2014myoblasthuman

This package contains a Bioconductor ExpressionSet from Trapnell et al. (2014) paper that performed a time-series experiment of bulk (three bulk samples per time point) and single cell RNA-Seq at four time points (hour 0, 24, 48, 72) in differentiated primary human myoblasts (PMID: 24658644). Metadata and pre-processed data (FPKM) were downloaded from Gene Expression Omnibus (GSE52529). Batch information was extracted from headers of FASTQ files downloaded from Sequence Read Archive.

Installation

The R-package trapnell2014myoblasthuman can be installed from Github using the R package devtools.

library(devtools)
install_github("stephaniehicks/trapnell2014myoblasthuman")

Load data

The data is provided as a ExpressionSet object can be loaded by running the following code in R:

library(trapnell2014myoblasthuman)
data(trapnell2014myoblasthuman)

# Get the expression data
eset = exprs(trapnell2014myoblasthuman)

# Get the pheno data
pd = pData(trapnell2014myoblasthuman)

Bug reports

Report bugs as issues on the GitHub repository

Contributors

About

This package contains a Bioconductor ExpressionSet from Trapnell et al. (2014) paper that performed a time-series experiment of bulk and single cell RNA-Seq at four time points in differentiated primary human myoblasts (GSE52529)

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