Rolexa: Statistical analysis of Solexa sequencing data
Version 1.27.0

Provides probabilistic base calling, quality checks and diagnostic plots for Solexa sequencing data

AuthorJacques Rougemont, Arnaud Amzallag, Christian Iseli, Laurent Farinelli, Ioannis Xenarios, Felix Naef
Date of publicationNone
MaintainerJacques Rougemont <jacques.rougemont@epfl.ch>
LicenseGPL-2
Version1.27.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("Rolexa")

Popular man pages

Batch: Multi-threaded Probabilistic Base Calling
Files: SaveResults
Model1: Correct for global correlations and biases
Model3: Fit and Plot intensities
Plots1: Batch Analysis
Plots2: Diagnostic plots
Plots3: Reconstruct tile image
See all...

All man pages Function index File listing

Man pages

AllClasses: Rolexa Setup Class
Batch: Multi-threaded Probabilistic Base Calling
Files: SaveResults
Model1: Correct for global correlations and biases
Model2: FilterResults
Model3: Fit and Plot intensities
Plots1: Batch Analysis
Plots2: Diagnostic plots
Plots3: Reconstruct tile image

Functions

BatchAnalysis Man page
BatchAnalysis,RolexaRun-method Man page
ChannelHistogram Man page
ChannelHistogram,SolexaIntensity-method Man page
CombineFastQ Man page
CombineFastQ,RolexaRun,SolexaPath-method Man page
CombineReads Man page
CombineReads,RolexaRun,SolexaPath-method Man page
CombinedPlot Man page
CombinedPlot,RolexaRun-method Man page
DeCorrelateChannels Man page
DeCorrelateChannels,SolexaIntensity-method Man page
DeCorrelateChannels,array-method Man page
DeCorrelateCycles Man page
DeCorrelateCycles,SolexaIntensity-method Man page
DeCorrelateCycles,array-method Man page
FilterResults Man page
FilterResults,RolexaRun-method Man page
ForkBatch Man page
GetModel Man page
OneBatch Man page
OneBatch,RolexaRun-method Man page
OptimizeAngle Man page
OptimizeAngle,SolexaIntensity-method Man page
OptimizeRate Man page
OptimizeRate,SolexaIntensity-method Man page
PlotCycles Man page
PlotCycles,RolexaRun-method Man page
QualityBoxPlots Man page
RolexaRun Man page
RolexaRun-class Man page
SaveResults Man page
SaveResults,RolexaRun-method Man page
SeqScore Man page
SeqScore,RolexaRun-method Man page
SetModel Man page
TileImage Man page
TileImage,SolexaIntensity-method Man page
TileNormalize Man page
TileNormalize,RolexaRun-method Man page

Files

Rolexa/DESCRIPTION
Rolexa/NAMESPACE
Rolexa/R
Rolexa/R/AllClasses.R
Rolexa/R/Batch.R
Rolexa/R/Files.R
Rolexa/R/Model.R
Rolexa/R/Plots.R
Rolexa/build
Rolexa/build/vignette.rds
Rolexa/inst
Rolexa/inst/doc
Rolexa/inst/doc/Rolexa-vignette-batchplot.R
Rolexa/inst/doc/Rolexa-vignette-tileimage.R
Rolexa/inst/doc/Rolexa-vignette.R
Rolexa/inst/doc/Rolexa-vignette.Rnw
Rolexa/inst/doc/Rolexa-vignette.pdf
Rolexa/man
Rolexa/man/AllClasses.Rd
Rolexa/man/Batch.Rd
Rolexa/man/Files.Rd
Rolexa/man/Model1.Rd
Rolexa/man/Model2.Rd
Rolexa/man/Model3.Rd
Rolexa/man/Plots1.Rd
Rolexa/man/Plots2.Rd
Rolexa/man/Plots3.Rd
Rolexa/vignettes
Rolexa/vignettes/Rolexa-vignette.Rnw
Rolexa/vignettes/Rolexa-vignette.bib
Rolexa documentation built on Oct. 5, 2016, 4:38 a.m.

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