# ClustAll: Data driven strategy to find groups of patients within complex diseases

## Documentation for package ‘ClustAll’ version 1.0.1

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

addValidationData | addValidationData
addValidationData-method | addValidationData
characterOrNA | characterOrNA Class union of character, null and missing
characterOrNA-class | characterOrNA Class union of character, null and missing
ClustAllObject-class | ClustAllObject
cluster2data | cluster2data: Export selected stratification(s)
cluster2data-method | cluster2data: Export selected stratification(s)
createClustAll | createClustAll: Creates ClustAllObject
createClustAll-method | createClustAll: Creates ClustAllObject
dataImputed | dataImputed accession method
dataImputed-method | dataImputed accession method
dataOriginal | dataOriginal accession method
dataOriginal-method | dataOriginal accession method
dataValidation | dataValidation accession method
dataValidation-method | dataValidation accession method
extractData | extractData
extractData-method | extractData
extractResults | extractResults
extractResults-method | extractResults
initialize-method | initializeClustAllObject
JACCARD_DISTANCE_F | JACCARD_DISTANCE_F accession method
JACCARD_DISTANCE_F-method | JACCARD_DISTANCE_F accession method
listOrNULL | Class Union listOrNULL
listOrNULL-class | Class Union listOrNULL
logicalOrNA | logicalOrNA
logicalOrNA-class | logicalOrNA
matrixOrNULL | matrixOrNULL
matrixOrNULL-class | matrixOrNULL
nImputation | nImputation accession method
nImputation-method | nImputation accession method
numericOrCharacter | numericOrCharacter
numericOrCharacter-class | numericOrCharacter
numericOrNA | Class Union numericOrNA
numericOrNA-class | Class Union numericOrNA
obj_noNA1 | obj_noNA1: Processed wdbc dataset for testing purposed
obj_noNA1simplify | obj_noNA1simplify: Processed wdbc dataset for testing purposed
obj_noNAno1Validation | obj_noNAno1Validation: Processed wdbc dataset for testing purposed
plotJACCARD | plotJACCARD: Heatmap of robust stratification distances based on Jaccard similarity
plotJACCARD-method | plotJACCARD: Heatmap of robust stratification distances based on Jaccard similarity
plotSANKEY | plotSANKEY: Plots Sankey Diagram showing the cluster distribution and shifts between a pair of stratifications derived from ClustAllObject
plotSANKEY-method | plotSANKEY: Plots Sankey Diagram showing the cluster distribution and shifts between a pair of stratifications derived from ClustAllObject
processed | processed accession method
processed-method | processed accession method
resStratification | resStratification: Show the representative stratifications
resStratification-method | resStratification: Show the representative stratifications
runClustAll | ClustAll: Data driven strategy to find hidden subgroups of patients within complex diseases using clinical data
runClustAll-method | ClustAll: Data driven strategy to find hidden subgroups of patients within complex diseases using clinical data
show-method | show method for ClustAllObject
showData | data accession method
showData-method | data accession method
summary_clusters | summary_clusters accession method
summary_clusters-method | summary_clusters accession method
validateStratification | validateStratification: calculates the sensitivity and specificity of selected stratification
validateStratification-method | validateStratification: calculates the sensitivity and specificity of selected stratification
wdbc | wdbc: Diagnostic Wisconsin Breast Cancer Database.
wdbcMIDS | wdbcMIDS: Diagnostic Wisconsin Breast Cancer Database with imputed values
wdbcNA | wdbcNA: Diagnostic Wisconsin Breast Cancer Database with missing values