gwSnpScreenResult-class {GGBase} | R Documentation |
Class "gwSnpScreenResult" – container for GGtools gwSnpScreen method outputs and allied objects
Objects can be created by calls of the form new("gwSnpScreenResult", ...)
.
These will be primarily lists of inference tables (snps are rows,
columns are statistics and p-values). Additional slots
manage analysis metadata.
gwSnpScreenResult is intended for genome-wide analysis of expression for a single gene.
cwSnpScreenResult is intended for the restriction to a single chromosome.
multiGwSnpScreenResult is intended for analyses with multiple genes.
Because the vast majority of tests are uninformative, early filtering is important for managing object sizes. Instances of filteredGwSnpScreenResult and filteredMultiGwSnpScreenResult are created when a snpdepth parameter is used with gwSnpTests.
.Data
:"list"
containing
inference tables (snps are rows, columns are statistics and
p-values) gene
:"character"
typically
the HUGO symbol of the gene analyzed psid
:"character"
the
feature identifier of the associated microarray annotation
:"character"
vector
of relevant annotation package identifier names formula
:"formula"
the
formula used to fit the model relating expression to
genotype
Class "list"
, from data part.
Class "vector"
, by class "list", distance 2.
Class AssayData
, by class "list",
distance 2.
plot and show
VJ Carey <stvjc@channing.harvard.edu>
showClass("gwSnpScreenResult") showClass("cwSnpScreenResult")