genArise: Microarray Analysis tool

genArise is an easy to use tool for dual color microarray data. Its GUI-Tk based environment let any non-experienced user performs a basic, but not simple, data analysis just following a wizard. In addition it provides some tools for the developer.

AuthorAna Patricia Gomez Mayen <pgomez@ifc.unam.mx>,\\ Gustavo Corral Guille <gcorral@ifc.unam.mx>, \\ Lina Riego Ruiz <lriego@ifc.unam.mx>,\\ Gerardo Coello Coutino <gcoello@ifc.unam.mx>
Date of publicationNone
MaintainerIFC Development Team <info-genarise@ifc.unam.mx>
Licensefile LICENSE
Version1.50.0
http://www.ifc.unam.mx/genarise

View on Bioconductor

Man pages

a.arise: A Arise

alter.unique: Remove Duplicates

analysis.window: Analysis.window

annotations: Gene Annotations

back.gui: Return to the last window

bg.correct: Background Correction

classes: Classes Defined by this Package

create.project: Create directorie for the project and its results and...

cys.plot: Data Visualization: log2(Cy3) vs log2(Cy5)

DataSet-class: DataSet - class

filter.spot: Intensity-based filtering of array elements

genArise: GUI: Graphical User Interface

genArise.init: genArise.init

genMerge: genMerge: Post-Genomic Analysis

get.values: Auxiliar function for post-analysis

get.Zscore: Swap from Files

global.norm: Global Normalization of Spot

graphic.choose: Graphic choose

grid.norm: Normalization by grid of Spot

help: Help of genArise

i.arise: I Arise

imageLimma: Image Plot of Microarray

make.swap: Swap analysis

ma.plot: Data Visualization: M vs. A plot

m.arise: M Arise

meanUnique: Remove Duplicates

note: note

old.project: Open previous project

post.analysis: Set-combinatorial analysis

principal: Principal window of genAriseGUI

projects.select: File selector

r.arise: Get R value

read.dataset: Read Dataset from File

read.spot: Read Spot from File

reset.history: Reset the prj history file

ri.plot: Data Visualization: R vs I

set.grid.properties: set.grid.properties

set.history.project: Save the history of a project

set.path.project: set.path.project

set.project.properties: set.project.properties

Simon: Dataset: Little fragment of a microarray from IFC UNAM

single.norm: Swap from Files

Spot-class: Spot - class

spotUnique: Replicate filtering

swap.select: Dye swap files selector

trim: Trim

write.dataSet: Write dataSet

write.spot: Write Spot

write.zscore: Write Z-score data

WT.dataset: Microarray from the IFC

Zscore: Z-scores for identifying differential expression

Zscore.plot: Z-score Data Visualization: R vs I or M vs A

Zscore.points: Z-score Window

Files in this package

genArise/DESCRIPTION
genArise/LICENSE
genArise/NAMESPACE
genArise/R
genArise/R/Zscore.R genArise/R/applications.R genArise/R/base.R genArise/R/baseGUI.R genArise/R/classes.R genArise/R/genArise.R genArise/R/genMerge.R genArise/R/help.R genArise/R/imageLimma.R genArise/R/input.R genArise/R/openProyect.R genArise/R/openswap.R genArise/R/operations.R genArise/R/output.R genArise/R/plot.R genArise/R/postAnalysis.R genArise/R/swap.R genArise/R/var.R
genArise/build
genArise/build/vignette.rds
genArise/data
genArise/data/Simon.rda
genArise/data/WT.dataset.rda
genArise/inst
genArise/inst/doc
genArise/inst/doc/genArise.R
genArise/inst/doc/genArise.Rnw
genArise/inst/doc/genArise.pdf
genArise/man
genArise/man/DataSet-class.Rd genArise/man/Simon.Rd genArise/man/Spot-class.Rd genArise/man/WT.dataset.Rd genArise/man/Zscore.Rd genArise/man/Zscore.plot.Rd genArise/man/Zscore.points.Rd genArise/man/a.arise.Rd genArise/man/alter.unique.Rd genArise/man/analysis.window.Rd genArise/man/annotations.Rd genArise/man/back.gui.Rd genArise/man/bg.correct.Rd genArise/man/classes.Rd genArise/man/create.project.Rd genArise/man/cys.plot.Rd genArise/man/filter.spot.Rd genArise/man/genArise.Rd genArise/man/genArise.init.Rd genArise/man/genMerge.Rd genArise/man/get.Zscore.Rd genArise/man/get.values.Rd genArise/man/global.norm.Rd genArise/man/graphic.choose.Rd genArise/man/grid.norm.Rd genArise/man/help.Rd genArise/man/i.arise.Rd genArise/man/imageLimma.Rd genArise/man/m.arise.Rd genArise/man/ma.plot.Rd genArise/man/make.swap.Rd genArise/man/meanUnique.Rd genArise/man/note.Rd genArise/man/old.project.Rd genArise/man/post.analysis.Rd genArise/man/principal.Rd genArise/man/projects.select.Rd genArise/man/r.arise.Rd genArise/man/read.dataset.Rd genArise/man/read.spot.Rd genArise/man/reset.history.Rd genArise/man/ri.plot.Rd genArise/man/set.grid.properties.Rd genArise/man/set.history.project.Rd genArise/man/set.path.project.Rd genArise/man/set.project.properties.Rd genArise/man/single.norm.Rd genArise/man/spotUnique.Rd genArise/man/swap.select.Rd genArise/man/trim.Rd genArise/man/write.dataSet.Rd genArise/man/write.spot.Rd genArise/man/write.zscore.Rd
genArise/vignettes
genArise/vignettes/genArise.Rnw
genArise/vignettes/help
genArise/vignettes/help/contents
genArise/vignettes/icons
genArise/vignettes/icons/acroread.png
genArise/vignettes/icons/analysis.png
genArise/vignettes/icons/cy3vscy5.png
genArise/vignettes/icons/editor.png
genArise/vignettes/icons/filter.png
genArise/vignettes/icons/help.png
genArise/vignettes/icons/logout.png
genArise/vignettes/icons/norm.png
genArise/vignettes/icons/regresar.png
genArise/vignettes/icons/swap.png
genArise/vignettes/icons/zscore.png

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.