subSeq: Subsampling of high-throughput sequencing count data

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

Author
David Robinson, John D. Storey, with contributions from Andrew J. Bass
Date of publication
None
Maintainer
Andrew J. Bass <ajbass@princeton.edu>, John D. Storey <jstorey@princeton.edu>
License
MIT + file LICENSE
Version
1.4.0
URLs

View on Bioconductor

Man pages

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

Files in this package

subSeq/DESCRIPTION
subSeq/LICENSE
subSeq/NAMESPACE
subSeq/NEWS
subSeq/R
subSeq/R/combineSubsamples.R
subSeq/R/generateSubsampledMatrix.R
subSeq/R/hammer-data.R
subSeq/R/handlers.R
subSeq/R/plot.summary.subsamples.R
subSeq/R/subsample.R
subSeq/R/summary.subsamples.R
subSeq/README.md
subSeq/build
subSeq/build/vignette.rds
subSeq/data
subSeq/data/datalist
subSeq/data/hammer.rda
subSeq/data/ss.rda
subSeq/inst
subSeq/inst/doc
subSeq/inst/doc/subSeq.R
subSeq/inst/doc/subSeq.Rnw
subSeq/inst/doc/subSeq.pdf
subSeq/man
subSeq/man/combineSubsamples.Rd
subSeq/man/generateSubsampledMatrix.Rd
subSeq/man/getSeed.Rd
subSeq/man/hammer.Rd
subSeq/man/plot.subsamples.Rd
subSeq/man/plot.summary.subsamples.Rd
subSeq/man/ss.Rd
subSeq/man/subsample.Rd
subSeq/man/summary.subsamples.Rd
subSeq/vignettes
subSeq/vignettes/refs.bib
subSeq/vignettes/subSeq.Rnw