MergeMaid: Merge Maid

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The functions in this R extension are intended for cross-study comparison of gene expression array data. Required from the user is gene expression matrices, their corresponding gene-id vectors and other useful information, and they could be 'list','matrix', or 'ExpressionSet'. The main function is 'mergeExprs' which transforms the input objects into data in the merged format, such that common genes in different datasets can be easily found. And the function 'intcor' calculate the correlation coefficients. Other functions use the output from 'modelOutcome' to graphically display the results and cross-validate associations of gene expression data with survival.

Author
Xiaogang Zhong <zhong@ams.jhu.edu> Leslie Cope <cope@jhu.edu> Elizabeth Garrett <esg@jhu.edu> Giovanni Parmigiani <gp@jhu.edu>
Date of publication
None
Maintainer
Xiaogang Zhong <zhong@ams.jhu.edu>
License
GPL (>= 2)
Version
2.46.0
URLs

View on Bioconductor

Man pages

class.mergeCoeff
Class mergeCoeff, a class for storing regression...
class.mergeCor
Class mergeCor, a class for storing data relevant to...
class.mergeExpressionSet
Class mergeExpressionSet, a class for merged microarray data,...
intCor
Correlation of Correlations
intcorDens
plot of density functions of integrative correlations
intersection
ExpressionSet with all common genes in a mergeExpressionSet
mergeData
MergeMaid instance data for merging
mergeExprs
Merge gene expression data sets
modelOutcome
Compare regression coefficients across studies

Files in this package

MergeMaid/CONTENTS
MergeMaid/DESCRIPTION
MergeMaid/NAMESPACE
MergeMaid/R
MergeMaid/R/MergeMaid.R
MergeMaid/build
MergeMaid/build/vignette.rds
MergeMaid/data
MergeMaid/data/mergeData.rda
MergeMaid/inst
MergeMaid/inst/doc
MergeMaid/inst/doc/MergeMaid.Rnw
MergeMaid/inst/doc/MergeMaid.pdf
MergeMaid/man
MergeMaid/man/class.mergeCoeff.Rd
MergeMaid/man/class.mergeCor.Rd
MergeMaid/man/class.mergeExpressionSet.Rd
MergeMaid/man/intCor.Rd
MergeMaid/man/intcorDens.Rd
MergeMaid/man/intersection.Rd
MergeMaid/man/mergeData.Rd
MergeMaid/man/mergeExprs.Rd
MergeMaid/man/modelOutcome.Rd
MergeMaid/vignettes
MergeMaid/vignettes/MergeMaid.Rnw