A package for manipulation and analysis of microarray expression files, especially Agilent microarrays.
It also facilitates the merging of expression data sets from different platforms according to shared gene ids.
Arguments
Details
Package:
agilp
Type:
Package
Version:
2.0
Date:
2012-06-10
The package contains 5 data processing functions :
AAProcess : Extracts raw expression data from Agilent expression array scanner files.
Baseline : Constructs a file with the mean of each probe from a set of raw expression array data files.
IDswop : Maps expression data across different bioinformatic identifiers.
Equaliser : Trims a set of gene expression data files to include only the set of identifiers common to all files.
AALoess : Normalises a set of gene expression data files using LOESS against a reference data set.
In addition the package contains two utility functions to facilitate the overall processing pipeline :
Loader : A file choser utility file, to select sets of data from a large database of expression datafiles.
filenamex : A file name listing utility.
Further details are given under individual functions.