STTtoShapeParameter: Soft Truncation Threshold
In GSAgm: Gene Set Analysis using the Gamma Method
Description
Usage
Arguments
Examples
View source: R/STTtoShapeParameter.R
Description
In using the Gamma Method[4], a soft truncation threshold (STT) must be
specified (that is, shape parameter for gamma distribution). For
combining p values using Fisher's method, set STT to 1/e. Based on
simulation studies, we have found that STT between 0.10 and 0.20 achieve
optimal power for a variety of situations. Empirical p values for the
gene set association are determined via permutations.
This function is called by the pcgamma one.
Usage
1
STTtoShapeParameter(STT)
Arguments
STT
numeric indicating soft truncation threshold (STT) to
convert to gamma parameter (must be <= 0.4)
Examples
1
STTtoShapeParameter(0.2)
GSAgm documentation built on May 2, 2019, 7:17 a.m.
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Description Usage Arguments Examples
View source: R/STTtoShapeParameter.R
Description
In using the Gamma Method[4], a soft truncation threshold (STT) must be specified (that is, shape parameter for gamma distribution). For combining p values using Fisher's method, set STT to 1/e. Based on simulation studies, we have found that STT between 0.10 and 0.20 achieve optimal power for a variety of situations. Empirical p values for the gene set association are determined via permutations.
This function is called by the pcgamma one.
Usage
1 | STTtoShapeParameter(STT)
|
Arguments
STT |
numeric indicating soft truncation threshold (STT) to convert to gamma parameter (must be <= 0.4) |
Examples
1 | STTtoShapeParameter(0.2)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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