subSeq v1.2.2

by Andrew J Bass

Subsampling of high-throughput sequencing count data

Subsampling of high throughput sequencing count data for use in experiment design and analysis.

Functions in subSeq

Name Description
combineSubsamples combine multiple subsamples objects
subsample Subsample reads and perform statistical testing on each sample
plot.subsamples plot metrics as a function of subsampled read depth
getSeed Extract the global random seed from a subsamples object
hammer ExpressionSet results from Hammer et al 2010
summary.subsamples calculate summary statistics for each subsampled depth in a subsamples object
ss Subsampling results using the hammer dataset
plot.summary.subsamples plot metrics as a function of subsampled read depth
generateSubsampledMatrix Generate the read matrix corresponding to a particular level
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Details

Type Package
biocViews Sequencing, Transcription, RNASeq, GeneExpression, DifferentialExpression
VignetteBuilder knitr
URL http://github.com/StoreyLab/subSeq
License MIT + file LICENSE
NeedsCompilation no

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