CSFA: Connectivity Scores with Factor Analysis

Applies Factor Analysis methodology to microarray data in order to derive connectivity scores between compounds. The package also contains an implementation of the Connectivity Score algorithm by Zhang and Gant.

AuthorEwoud De Troyer
Date of publication2016-09-19 12:53:22
MaintainerEwoud De Troyer <ewoud.detroyer@uhasselt.be>
LicenseGPL-3
Version0.91

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Files

DESCRIPTION
NAMESPACE
R
R/CSFA.R R/CScompare.R R/analyse_functions.R R/extra.R R/fabia_functions.R R/method_structure.R R/permutation_functions.R R/zhang_functions.R
build
build/vignette.rds
data
data/dataSIM.RData
data/datalist
inst
inst/doc
inst/doc/CSFA.Rnw
inst/doc/CSFA.pdf
man
man/CSFA.Rd man/CSanalysis-matrix-matrix-CSfabia-method.Rd man/CSanalysis-matrix-matrix-CSmfa-method.Rd man/CSanalysis-matrix-matrix-CSpca-method.Rd man/CSanalysis-matrix-matrix-CSsmfa-method.Rd man/CSanalysis-matrix-matrix-CSzhang-method.Rd man/CSanalysis-matrix-matrix-character-method.Rd man/CSanalysis.Rd man/CScompare.Rd man/CSlabelscompare.Rd man/CSpermute.Rd man/CSresult-class.Rd man/dataSIM.Rd
vignettes
vignettes/CSFA.Rnw
vignettes/asa.bst
vignettes/connectivityRef.bib
vignettes/figure
vignettes/figure/CScompare-1.pdf
vignettes/figure/CScompare-2.pdf
vignettes/figure/CScompare-3.pdf
vignettes/figure/CScompare-4.pdf
vignettes/figure/CScompare-5.pdf
vignettes/figure/CSpermuteplots-1.pdf
vignettes/figure/CSpermuteplots-2.pdf
vignettes/figure/CSpermuteplots-3.pdf
vignettes/figure/CSpermuteplots2-1.pdf
vignettes/figure/CSpermuteplots2-2.pdf
vignettes/figure/CSpermuteplots2-3.pdf
vignettes/figure/FABIA-1.pdf
vignettes/figure/FABIA-2.pdf
vignettes/figure/FABIA-3.pdf
vignettes/figure/MFA-1.pdf
vignettes/figure/MFA-2.pdf
vignettes/figure/MFA-3.pdf
vignettes/figure/MFA-4.pdf
vignettes/figure/MFA2-1.pdf
vignettes/figure/MFA3-1.pdf
vignettes/figure/ZG-1.pdf
vignettes/figure/data_heatmap-1.png
vignettes/perm_data
vignettes/perm_data/out_MFA.RData
vignettes/perm_data/out_ZG.RData

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

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