Find Biomarkers in Two-Class Discrimination Problems


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Documentation for package ‘BioMark’ version 0.4.5

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AUC ROC curves
aux.biom Auxiliary functions in the biomarker package
biom.options Set or return options for stability-based biomarker selection
coef.BMark Get biomarkers discriminating between two classes
gen.data Simulate data sets
gen.data2 Simulate data sets
get.biom Get biomarkers discriminating between two classes
get.segments Subsampling segments
HCthresh Biomarker thresholding by Higher Criticism
identify.ROC ROC curves
lasso.coef Auxiliary functions in the biomarker package
lasso.stab Auxiliary functions in the biomarker package
lines.ROC ROC curves
neg.markers Spike-in metabolomics data for apple extracts
pcr.coef Auxiliary functions in the biomarker package
pcr.stab Auxiliary functions in the biomarker package
plot.ROC ROC curves
pls.coef Auxiliary functions in the biomarker package
pls.stab Auxiliary functions in the biomarker package
points.ROC ROC curves
pos.markers Spike-in metabolomics data for apple extracts
print.BMark Get biomarkers discriminating between two classes
print.ROC ROC curves
pval.pcr Auxiliary functions in the biomarker package
pval.plsvip Auxiliary functions in the biomarker package
ROC ROC curves
ROC.default ROC curves
roc.value ROC curves
scalefun Different forms of scaling
selection Accessor function to the selected variables of a BioMark object
shrinkt.coef Auxiliary functions in the biomarker package
shrinkt.stab Auxiliary functions in the biomarker package
SpikedApple Spike-in metabolomics data for apple extracts
spikedApples Metabolomics data on spiked apples
SpikeNeg Spike-in metabolomics data for apple extracts
SpikePos Spike-in metabolomics data for apple extracts
studentt.coef Auxiliary functions in the biomarker package
studentt.stab Auxiliary functions in the biomarker package
summary.BMark Get biomarkers discriminating between two classes
traceplot Plot the coefficient or stability trace for the lasso/elastic net biomarker selection.
vip.coef Auxiliary functions in the biomarker package
vip.stab Auxiliary functions in the biomarker package