samroc.result-class: Class "samroc.result" for results of the function samrocN

In SAGx: Statistical Analysis of the GeneChip

Description

The class samroc.result is the output of a call to samrocN and the input of various other functions.

Slots

d:

Object of class "numeric". Observed test statistic.

diff:

Object of class "numeric". Estimate of effect, e.g. difference between group means.

se:

Object of class "numeric". Standard error of diff.

d0:

Object of class "matrix". Permutation test statistics.

p0:

Object of class "numeric". The estimated proportion unaffceted genes.

s0:

Object of class "numeric". The fudge factor.

pvalues:

Object of class "numeric". The p-values.

N.list:

Object of class "integer". The optimal top list size among the sizes suggested.

errors:

Object of class "numeric". The sum of false postives and false negatives given a list that includes the current gene.

formula:

Obeject of class "formula". The linear model formula used.

contrast:

Object of class "numeric". The contrast estimated.

annotation:

Object of class "character". Annotation or comments regarding the analysis. By default the date.

N.sample:

Object of class "integer". The number of samples.

B:

Object of class "integer". The number of premutations.

call:

Object of class "character". The call to the function.

id:

Object of class "character". The probeset ids.

error.df:

Object of class "integer". The error degrees of freedom.

design:

Object of class "matrix". The design matrix.

Methods

show

(samroc.result): Summarizes the test result.

plot

(samroc.result): Plots the density of the observed test statistic and that of the corresponding null distribution

Author(s)

Per Broberg

See Also

samrocN

SAGx documentation built on Nov. 8, 2020, 8:18 p.m.