Files in PCAPAM50
Enhanced 'PAM50' Subtyping of Breast Cancer
MD5
NEWS.md
NAMESPACE
README
DESCRIPTION
R/functions_PCA-PAM50.R
R/data.R
R/zzz.R
inst/functions_PCA-PAM50.R
inst/LICENSE.md
inst/CITATION
inst/doc/PCAPAM50_vignette.R
inst/doc/PCAPAM50_vignette.html
inst/doc/PCAPAM50_vignette.Rmd
inst/extdata/TCGA.712BC_IHC_PAM-Mat.Rdat
inst/extdata/Sample_IHC_PAM_Mat.Rdat
inst/PAM50/README.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_PC1ihc_09May18.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v2.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v4.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v7.txt
inst/PAM50/bioclassifier_R/mdns_Metabric989PC1IHC_09June18.txt
inst/PAM50/bioclassifier_R/RNASeq52_10ERp10ERn.txt
inst/PAM50/bioclassifier_R/pam50_centroids.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v17a.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v5.txt
inst/PAM50/bioclassifier_R/subtypePrediction_functions_PNmodified.R
inst/PAM50/bioclassifier_R/mediansPerDataset_v18.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v17.txt
inst/PAM50/bioclassifier_R/mdns_TCGA712IHC_09May18.txt
inst/PAM50/bioclassifier_R/subtypePrediction_functions.R
inst/PAM50/bioclassifier_R/mediansPerDataset_15Nov17.txt
inst/PAM50/bioclassifier_R/pam50_centroids_PNmdfd.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v6.txt
inst/PAM50/bioclassifier_R/mdns_TEST_v1pam.txt
inst/PAM50/bioclassifier_R/subtypePrediction_distributed.R
inst/PAM50/bioclassifier_R/mdns_TCGA712v1pam_09May18.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v9.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v21.txt
inst/PAM50/bioclassifier_R/220arrays_nonUBCcommon+12normal_50g.txt
inst/PAM50/bioclassifier_R/PAM50_agilentProbes.xlsx
inst/PAM50/bioclassifier_R/mdns_Meabric989v1pam_09June18.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_09May18.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v3.txt
inst/PAM50/bioclassifier_R/mdns_TEST_IHC.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v8.txt
inst/PAM50/bioclassifier_R/mdns_TEST_PC1IHC.txt
inst/PAM50/bioclassifier_R/subtypePrediction_distributed_PNmodified.R
inst/PAM50/bioclassifier_R/mediansPerDataset_23May17.txt
inst/PAM50/bioclassifier_R/mediansPerDataset_v22.txt
inst/PAM50/bioclassifier_R/pam50_annotation.txt
inst/PAM50/bioclassifier_R/mdns_TCGA712PC1IHC_09May18.txt
inst/PAM50/bioclassifier_R/mdns_METABRIC989IHC_09June18.txt
inst/PAM50/bioclassifier_example/bioclassifier_subtypeAssignment.R
inst/PAM50/bioclassifier_example/sampleInputFile_200subjects.txt
inst/PAM50/bioclassifier_example/sampleOutput/sampleInputFile_PAM50_normalized_heatmap.pdf
inst/PAM50/bioclassifier_example/sampleOutput/predictionScores_pam50RankCorrelation_2.pdf
inst/PAM50/bioclassifier_example/sampleOutput/sampleInputFile_PAM50_normalized_heatmap.gtr
inst/PAM50/bioclassifier_example/sampleOutput/predictionScores_pam50RankCorrelation_1.pdf
inst/PAM50/bioclassifier_example/sampleOutput/sampleInputFile_pam50scores.txt
inst/PAM50/bioclassifier_example/sampleOutput/sampleInputFile_PAM50_normalized_heatmap.atr
inst/PAM50/bioclassifier_example/sampleOutput/sampleInputFile_PAM50_normalized_heatmap.cdt
build/vignette.rds
tests/testthat.R
tests/testthat/test-functions_PCA-PAM50.R
vignettes/PCAPAM50_vignette.Rmd
vignettes/Plots/PC1ihc.Mdns_PAM50_normalized_heatmap.pdf
vignettes/Plots/PC1_discordance_cases.png
vignettes/Plots/Ihc.Mdns_PAM50_normalized_heatmap.pdf
vignettes/Plots/PCAPAM50.Mdns_PAM50_normalized_heatmap.pdf
man/makeCalls.ihc.Rd
man/makeCalls.PC1ihc.Rd
man/my.plotPCA.Rd
man/makeCalls.v1PAM.Rd
