Spot shape models
source code for RSpot shape models
source code for R
This page contains the source code for R to model the shape of cDNA
microarray spots. The reference for the functions can be found in the
paper Spot shape modelling and data transformations for microarrays. published in Bioinformatics.
Functions will be documented shortly.
Functions for creating table 1
Functions for creating table 2
Fucntion for doing the approximation with the conditional expectation
The R-code above use my microarray
package for R to read tiff files and extract the necessary spot
areas. The microarray package is very much under construction but you
are more than welcome to download it and use it. It requires the libtiff library to compile and at
least it works under linux - I haven't tried any other OS. Before downloading you may want to read
the documentation (in PDF).
As always ... please let me know of any bugs, comments and suggestions for the package.
Author: Claus Ekstrøm, March 29th 2005.