sis.obj: Sure Independent Screening S3 Class and Methods

In YinanZheng/PGS: Penalized GEE with Grid Search

Description

sis.obj is a S3 class to store PGS sure independent screening results. Internally used by sis and pgsfit. sis.obj contains:

• name: name (id) of variables

• estimate: beta estimate

• stderr: standard error

• p.value: raw p-value

• bh.fdr: Benjamini-Hochberg (BH) false discover rate (FDR)

• bonferroni.p: Bonferroni adjusted p-value

• method: independent screening method used in sis

Usage

sis.obj(name, estimate, stderr, p.value, bh.fdr, bonferroni.p, method)

## S3 method for class 'sis.obj'
print(sis.obj)

## S3 method for class 'sis.obj'
plot(sis.obj)

## S3 method for class 'sis.obj'
coef(sis.obj, p = 1, fdr = 1, bonferroni = 1)

See Also

see sis to run sure independent screening procedures and obtain sis.obj object.

Examples

## Print sure independent screening object:
sis.obj

## Plot sure independent screening object (histogram of p-values and Q-Q plot):
plot(sis.obj)

## Return sure independent screening results:
coef(sis.obj)  # complete results
coef(sis.obj, fdr = 0.05)  # results with BH.FDR < 0.05

#For more information, please visit: https://github.com/YinanZheng/PGS/wiki/Example:-miRNA-expression-and-lung-function

YinanZheng/PGS documentation built on May 29, 2021, 10:07 p.m.