alluvialMat {projectR} | R Documentation

## alluvialMat

### Description

Function to provide alluvial matrix for generating alluvial plot

### Usage

    alluvialMat(
      projection,
      annotations,
      annotationName = "Cell type",
      annotationType = "Cell",
      plot = TRUE,
      minPropExplained = 0.75
    )

### Arguments

`projection` | a projection generated from projectR, ensure that full = TRUE while generating projection
`annotations` | a character vector of annotations for the data
`annotationName` | a charcter fof collective name of the annotations, default is "Cell type"
`annotationType` | a character indicating the type of data annotated, default is "Cell"
`plot` | logical indicating whether to return the alluvial plot, default is TRUE
`minPropExplained` | threshold for minimum proportion of samples that correspond to a pattern to be used for plotting

### Value

A matrix to generate alluvial plots

### Examples

    projection <- projectR(data=p.ESepiGen4c1l$mRNA.Seq,loadings=AP.RNAseq6l3c3t$Amean,
    dataNames = map.ESepiGen4c1l[["GeneSymbols"]], full = TRUE)
    alluvialMat(projection,pd.ESepiGen4c1l$Condition)

[Package projectR version 1.8.0 Index]