A package with focus on analysis of discrete regions of the genome. This package is useful for investigation of one or a few genes using Affymetrix data, since it will extract probe level data using the Affymetrix Power Tools application and wrap these data into a ProbeLevelSet. A ProbeLevelSet directly extends the expressionSet, but includes additional information about the sequence of each probe and the probe set it is derived from. The package includes a number of functions used for plotting these probe level data as a function of location along sequences of mRNA-strands. This can be used for analysis of variable splicing, and is especially well suited for use with exon-array data.
|Author||Lasse Folkersen, Diego Diez|
|Date of publication||None|
|Maintainer||Lasse Folkersen <email@example.com>|
|License||GPL (>= 2)|
exampleProbeLevelSet: Example Dataset of class 'ProbeLevelSet'
excludeDoubleMatchingProbes: Exclude ProbeLevelSet probes that match more than once in...
findSequenceInGenome: Find a sequence in genome
genomic: genomic sequence of gene in ProbeLevelSet
mrna: mRNA sequence of gene in ProbeLevelSet
Nondocumented-objects: Here goes every undocumented function.
ProbeLevelSet-class: Class ProbeLevelSet