CSFA: Connectivity Scores with Factor Analysis

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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.

Author
Ewoud De Troyer
Date of publication
2016-09-19 12:53:22
Maintainer
Ewoud De Troyer <ewoud.detroyer@uhasselt.be>
License
GPL-3
Version
0.91

View on R-Forge

Man pages

CSanalysis
Connectivity Score Analysis.
CSanalysis-matrix-matrix-character-method
Connectivity Score Analysis.
CSanalysis-matrix-matrix-CSfabia-method
"CSfabia"
CSanalysis-matrix-matrix-CSmfa-method
"CSmfa"
CSanalysis-matrix-matrix-CSpca-method
"CSpca"
CSanalysis-matrix-matrix-CSsmfa-method
"CSsmfa"
CSanalysis-matrix-matrix-CSzhang-method
"CSzhang"
CScompare
Compare CS Results.
CSFA
Computing connectivity scores with Factor Analysis...
CSlabelscompare
Compare Automatic Factor Labels with Manual Provided Labels.
CSpermute
Permute CS results
CSresult-class
An S4 class in which the results of the Connectivity Scores...
dataSIM
Simulated Microarray Data

Files in this package

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