init.grid {sma}R Documentation

Initialization of Grid Parameters

Description

Interactive function for specifying the dimensions of the spot matrix and the grid matrix. These parameters depend on the printing layout of the array, and are used for the within print-tip group normalization implemented in stat.ma and the spatial representation of spot statistics in plot.spatial.

Usage

init.grid()

Arguments

None.

Value

list containing the following components

nspot.r the number of rows of spots per grid;
nspot.c the number of columns of spots per grid;
ngrid.r the number of rows of grids per image;
ngrid.c the number of columns of grids per image.

Author(s)

Yee Hwa Yang, yeehwa@stat.berkeley.edu
Sandrine Dudoit, sandrine@stat.berkeley.edu

References

Spot manual.

See Also

plot.mva, plot.spatial, stat.ma, list.

Examples

data(MouseArray)
# mouse.setup <- init.grid()

## Here is what you should see:
# Enter number of rows of grids per image (ngrid.r): 4
# Enter number of columns of grids per image (ngrid.c): 4
# Enter number of rows of spots per grid (nspot.r): 19  
# Enter number of columns of spots per grid (nspot.c): 21
# Initialization complete

[Package sma version 0.5.15 Index]