MIMOSA-accessors: Extract the posterior probabilities of response from a MIMOSA...

In MIMOSA: Mixture Models for Single-Cell Assays

Description

Extract the posterior probabilities of response from a MIMOSA model

Extract the component weights from a MIMOSA model

Usage

getZ(x)

## S3 method for class 'MIMOSAResultList'
getZ(x)

## S3 method for class 'MIMOSAResult'
getZ(x)

getW(x)

## S3 method for class 'MIMOSAResultList'
getW(x)

## S3 method for class 'MIMOSAResult'
getW(x)

Arguments

x	output from a MIMOSA model

Value

a matrix of posterior probabilities

a vector of component weights

Examples

 data(ICS)
E<-ConstructMIMOSAExpressionSet(ICS,
  reference=ANTIGEN%in%'negctrl',measure.columns=c('CYTNUM','NSUB'),
  other.annotations=c('CYTOKINE','TCELLSUBSET','ANTIGEN','UID'),
  default.cast.formula=component~UID+ANTIGEN+CYTOKINE+TCELLSUBSET,
  .variables=.(TCELLSUBSET,CYTOKINE,UID),
  featureCols=1,ref.append.replace='_REF')

result<-MIMOSA(NSUB+CYTNUM~UID+TCELLSUBSET+CYTOKINE|ANTIGEN,
    data=E, method='EM',
    subset=RefTreat%in%'Treatment'&ANTIGEN%in%'ENV',
    ref=ANTIGEN%in%'ENV'&RefTreat%in%'Reference')
    getZ(result)
data(ICS)
E<-ConstructMIMOSAExpressionSet(ICS,
  reference=ANTIGEN%in%'negctrl',measure.columns=c('CYTNUM','NSUB'),
  other.annotations=c('CYTOKINE','TCELLSUBSET','ANTIGEN','UID'),
  default.cast.formula=component~UID+ANTIGEN+CYTOKINE+TCELLSUBSET,
  .variables=.(TCELLSUBSET,CYTOKINE,UID),
  featureCols=1,ref.append.replace='_REF')

result<-MIMOSA(NSUB+CYTNUM~UID+TCELLSUBSET+CYTOKINE|ANTIGEN,
    data=E, method='EM',
    subset=RefTreat%in%'Treatment'&ANTIGEN%in%'ENV',
    ref=ANTIGEN%in%'ENV'&RefTreat%in%'Reference')
getW(result)

MIMOSA documentation built on Nov. 12, 2020, 2:02 a.m.