group_map {RNAdecay} | R Documentation

## model color map

### Description

group_map makes a color map of alpha and beta equivalence groups by model. Similar colors in a row indicate constrained parameter equivalence between treatements. Gray indicates values of 0.

### Usage

    group_map(decaydata, path, nEquivGrp = nEquivGrp, groups = groups,
      mods = mods)

### Arguments

`decaydata` | 5 column data.frame with colnames "geneID","treatment","t.decay","rep","value"
`path` | write path and file name, must end in ".pdf"
`nEquivGrp` | number of equivalence groups based on number of treatments
`groups` | equivalence group matrix
`mods` | alpha beta equivalence group usage index (matrix)

### Value

creates a model colormap and writes it to a pdf file named `path`

### Examples

    group_map(decaydata=data.frame(geneID=paste0("gene",1:4),
                        treatment=as.factor(rep(paste0("treat",1:2),2)),
                        t.decay=0:3,
                        rep=rep("rep1"),
                        value=c(1,0.5,0.25,0.12)),
             path=paste0(getwd(),"/parameter equivalence colormap.pdf"),
             nEquivGrp = 2,
             groups = t(matrix(c(1,2,1,1,NA,NA),nrow=2,
                        dimnames=list(c("treat1","treat2"),c("grp1","grp2","grp3")))),
             mods = t(matrix(c(1,1,1,2,1,3,2,1,2,2,2,3),nrow=2,
                             dimnames=list(c("a","b"),paste0("mod",1:6)))))

[Package RNAdecay version 1.3.1 Index]