SAFE-class {safe} | R Documentation |
The class SAFE is the output from the function safe
. It is also the input
to the plotting function safeplot
.
local
:"character"
describing the local
statistic used.local.stat
:"numeric"
containing
the (unsorted) observed local statistics for genes.local.pval
:"numeric"
containing
the (unsorted) empirical p-values for genesglobal
:"character"
describing the local
statistic used.global.stat
:"numeric"
containing
the (unsorted) observed global statistics for categories.global.pval
:"numeric"
containing
the (unsorted) empirical p-values for categories.error
:"character"
describing the method
used to estimate error rates across multiple comparisons.global.error
:"numeric"
containing
the (unsorted) error rates associated with the p-values for categories. If not computed,
it will be set to NA
.C.mat
:"matrix"
containing the category
assignments. Each row corresponds to a gene, and each column a category.alpha
:"numeric"
containing the alpha level
for significance of a category.method
:"character"
describing the resampling
method used in safe
.safeplot
produces a plot of the
relative association of expression in a category of genes relative to their
complement.William T Barry: bill.barry@duke.edu