SQUADD: Add-on of the SQUAD Software
Version 1.26.0

This package SQUADD is a SQUAD add-on. It permits to generate SQUAD simulation matrix, prediction Heat-Map and Correlation Circle from PCA analysis.

AuthorMartial Sankar, supervised by Christian Hardtke and Ioannis Xenarios
Bioconductor views GraphAndNetwork Network Visualization
Date of publicationNone
MaintainerMartial Sankar <martial.sankar@unil.ch>
LicenseGPL (>=2)
Version1.26.0
URL http://www.unil.ch/dbmv/page21142_en.html
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("SQUADD")

Getting started

Package overview

Popular man pages

getFittedTable: Build the table of fitted values.
plotCC-methods: plot the correlation circle
plotPredMap: Prediction map
plotPredMap-methods: Display a prediction map
plotSimMatrix: Generate the SQUAD Simulation matrix display.
plotSimMatrix-methods: Generate a SQUAD simulation matrix
SquadSimResServiceImpl-class: Class "SquadSimResServiceImpl"
See all...

All man pages Function index File listing

Man pages

getFittedTable: Build the table of fitted values.
getFittedTable-methods: Build the table of fitted values
plotCC: Generate the Correlation Circle.
plotCC-methods: plot the correlation circle
plotPredMap: Prediction map
plotPredMap-methods: Display a prediction map
plotSimMatrix: Generate the SQUAD Simulation matrix display.
plotSimMatrix-methods: Generate a SQUAD simulation matrix
SQUADD-package: Collection of visualization tools to perform a SQUAD-based...
SquadSimResServiceImpl-class: Class "SquadSimResServiceImpl"

Functions

CCplot Source code
SQUADD Man page
SQUADD-package Man page
SquadSimResServiceImpl Man page
SquadSimResServiceImpl-class Man page
[,SquadSimResServiceImpl-method Man page
[<-,SquadSimResServiceImpl-method Man page
getColdMap Source code
getFittedTable Man page
getFittedTable,SquadSimResServiceImpl-method Man page
getFittedTable-methods Man page
getLeastSqValues Source code
getLowessValues Source code
getSimPlot Source code
getValues Source code
plotByTab Source code
plotCC Man page
plotCC,SquadSimResServiceImpl-method Man page
plotCC-methods Man page
plotPredMap Man page
plotPredMap,SquadSimResServiceImpl-method Man page
plotPredMap-methods Man page
plotSimMatrix Man page
plotSimMatrix,SquadSimResServiceImpl-method Man page
plotSimMatrix-methods Man page
simResService Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/SquadSimResService.R
R/SquadSimResServiceImpl.R
build
build/vignette.rds
inst
inst/doc
inst/doc/SQUADD.R
inst/doc/SQUADD.Rnw
inst/doc/SQUADD.pdf
inst/doc/SQUADD_ERK.R
inst/doc/SQUADD_ERK.Rnw
inst/doc/SQUADD_ERK.pdf
inst/extdata
inst/extdata/data_ERK
inst/extdata/data_ERK/1_ERK-sustained.txt
inst/extdata/data_ERK/2_mERK-sustained.txt
inst/extdata/data_ERK/3_gERK-sustained.txt
inst/extdata/data_ERK/sample.prt
inst/extdata/data_ERK/sample_model.net
inst/extdata/data_IAA
inst/extdata/data_IAA/brx_1_normal.txt
inst/extdata/data_IAA/brx_2_brxlof.txt
inst/extdata/data_IAA/brx_3_brrescue.txt
inst/extdata/data_IAA/brx_4_brxarfi.txt
inst/extdata/data_IAA/brx_5_brxarfiRescue.txt
inst/extdata/data_IAA/brx_6_gain.txt
man
man/SQUADD-package.Rd
man/SquadSimResServiceImpl-class.Rd
man/getFittedTable-methods.Rd
man/getFittedTable.Rd
man/plotCC-methods.Rd
man/plotCC.Rd
man/plotPredMap-methods.Rd
man/plotPredMap.Rd
man/plotSimMatrix-methods.Rd
man/plotSimMatrix.Rd
vignettes
vignettes/SQUADD.Rnw
vignettes/SQUADD_ERK.Rnw
vignettes/biblio.bib
SQUADD documentation built on May 20, 2017, 10:21 p.m.

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