pairwise.filter {simpleaffy}R Documentation

Filter pairwise comparison statistics between two experimental groups

Description

Given the results of a pairwise.comparison, filter the resulting gene list on expression level, PMA calls (if available), fold change and t-test statistic

Arguments

object a 'PairComp' object
eset an 'exprSet' object used to filter by intensity
min.exp Filter genes using a minimum expression cut off
min.exp.no A gene must have an expression intensity greater than 'min.exp' in at least this number of chips
min.present.no A gene must be called present on at least this number of chips
fc A gene must show a log2 fold change greater than this to be called significant
tt A gene must be changing with a p-score less than this to be called significant

Value

A 'PairComp' object filtered to contain only the genes that pass the specified filter parameters.

Author(s)

Crispin J Miller

References

http://bioinformatics.picr.man.ac.uk/


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