PrintLayout {limma} | R Documentation

## Print Layout - class

### Description

A list-based class for storing information about the process used to print spots on a microarray.

`PrintLayout` objects can be created using `getLayout`. The `printer` component of an `RGList` or `MAList` object is of this class.

### Slots/List Components

Objects of this class contains no slots but should contain the following list components:

`ngrid.r`: | number of grid rows on the arrays
`ngrid.c`: | number of grid columns on the arrays
`nspot.r`: | number of rows of spots in each grid
`nspot.c`: | number of columns of spots in each grid
`ndups`: | number of duplicates of each DNA clone, i.e., number of times print-head dips into each well of DNA
`spacing`: | number of spots between duplicate spots. Only applicable if `ndups>1`. `spacing=1` for side-by-side spots by rows, `spacing=nspot.c` for side-by-side spots by columns, `spacing=ngrid.r*ngrid.c*nspot.r*nspot.c/2` for duplicate spots in top and bottom halves of each array.
`npins`: | actual number of pins or tips on the print-head
`start`: | character string giving position of the spot printed first in each grid. Choices are `"topleft"` or `"topright"` and partial matches are accepted.

### Author(s)

Gordon Smyth

### See Also

02.Classes gives an overview of all the classes defined by this package.

### Examples

    #  Settings for Swirl and ApoAI example data sets in User's Guide

    printer <- list(ngrid.r=4, ngrid.c=4, nspot.r=22, nspot.c=24, ndups=1, spacing=1, npins=16, start="topleft")

    #  Typical settings at the Australian Genome Research Facility

    #  Full pin set, duplicates side-by-side on same row
    printer <- list(ngrid.r=12, ngrid.c=4, nspot.r=20, nspot.c=20, ndups=2, spacing=1, npins=48, start="topright")

    #  Half pin set, duplicates in top and lower half of slide
    printer <- list(ngrid.r=12, ngrid.c=4, nspot.r=20, nspot.c=20, ndups=2, spacing=9600, npins=24, start="topright")

[Package limma version 2.2.0 Index]