Calculate a Chi-squared Statistic and P-Value for Independent Items of a Set Using the GLOSSI Method
Calculates the p-value representing the association of the set with the phenotype of interest, assuming all items in the set are independent, using the GLOSSI method.
A numerical vector of p-values with names
corresponding to elements listed in the
An object of class
This function calculates a p-value for sets of SNPs that reside within a gene set collection. We calculate the chi- square p-values and statistic by applying Fisher's transformation to the observed p-values.
An object with the corresponding GLOSSI results. If
snp.gsc is a
GeneSetCollection (i.e., multiple sets of
interest), then the corresponding
is returned. If snp.gsc is a
object will be returned.
Jason Hackney, Jessica Larson, Caitlin McHugh firstname.lastname@example.org
Chai, High-Seng and Sicotte, Hughes et al. GLOSSI: a method to assess the association of genetic loci-sets with complex diseases. BMC Bioinformatics, 2009.
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