v2m {OLIN} | R Documentation

## Converts vector to matrix based on spot layout

### Description

This functions converts a vector to a matrix based on a given spot layout. Optionally, it produces a 2D-plot.

### Usage

    v2m(V,Ngc,Ngr,Nsc,Nsr,visu=FALSE,color.lim=c(-1,1),xlab="Columns",ylab="Rows",...)

### Arguments

`V` | vector of real values
`Ngc` | number of columns for the grid matrix
`Ngr` | number of rows for the grid matrix
`Nsc` | number of columns for the spot matrix
`Nsr` | number of rows for the spot matrix
`visu` | If FALSE, MXY plot is generated.
`color.lim` | Limits of color range for MXY plot
`xlab` | label of x -axis of MXY plot
`ylab` | label of y-axis of MXY plot
`...` | Further optional parameters for the `image` function generating the MXY plot

### Details

The function `v2m` converts a vector `V` (as e.g. derived by `maM(object)[,index]`) to a matrix representing the spatial distribution of the values of `V` across the array. Note that this function assumes a specific mapping between the data points and the location of spot (i.e. the same mapping rule that is used for marrayRaw/marrayNorm objects.) The validity of this mapping should be carefully checked (see also the documentation of packet marray.) The option for spatial visualisation is rather restricted to logged fold-changes as the corresponding colour range is centred around zero and follows the conventional colouring (green for negative, red for positive fold-changes). The MXY plot produced by `v2n` does not include a colour bar. To have a colour included, you can use `mxy.plot`.

### Value

A 2D-matrix with `(Ngc*Nsc)` columns and `(Ngr*Nsr)` is produced. This matrix represents the spatial distribution of the values of vector `V` given the print-layout.

### Author(s)

Matthias E. Futschik, http://itb.biologie.hu-berlin.de/~futschik

### See Also

`mxy.plot`, `m2v`, `marrayRaw`

### Examples

    # LOADING DATA NOT-NORMALISED
    data(sw.olin)
    # CONVERSION FROM VECTOR TO MATRIX
    M <- v2m(maM(sw.olin)[,1],Ngc=maNgc(sw.olin),Ngr=maNgr(sw.olin),
             Nsc=maNsc(sw.olin),Nsr=maNsr(sw.olin),visu=TRUE)

    # BACK-CONVERSION FROM MATRIX TO VECTOR
    V <- m2v(M,Ngc=maNgc(sw.olin),Ngr=maNgr(sw.olin),
                 Nsc=maNsc(sw.olin),Nsr=maNsr(sw.olin),visu=TRUE)

[Package OLIN version 1.62.0 Index]