separateAdjPval: Computes the adjusted p-values separately on contrast using...
In prostarproteomics/DAPAR: Tools for the Differential Analysis of Proteins Abundance with R
View source: R/anova_analysis.R
separateAdjPval R Documentation
Computes the adjusted p-values separately on contrast using CP4P
Description
Computes the adjusted p-values separately on contrast using CP4P
Usage
separateAdjPval(x, pval.threshold = 1.05, method = 1)
Arguments
x
a proteins x contrasts dataframe of (raw) p-values
pval.threshold
all the p-values above the threshold are not considered.
Default is 1.05 (which is equivalent to have no threshold).
Applying a threshold nearby 1 can be instrumental to improve the uniformity under the null, notably
in case of upstream mutliple contrat correction (for experienced users only)
method
a method to estimate pi_0, see CP4P
Value
a proteins x contrasts table of adjusted p-values
Author(s)
Thomas Burger
Examples
data(Exp1_R25_prot, package='DAPARdata')
exdata <- Exp1_R25_prot[1:5,]
separateAdjPval(testAnovaModels(applyAnovasOnProteins(exdata), "TukeyHSD")$P_Value)
prostarproteomics/DAPAR documentation built on March 28, 2024, 4:44 a.m.
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View source: R/anova_analysis.R
| separateAdjPval | R Documentation |
Computes the adjusted p-values separately on contrast using CP4P
Description
Computes the adjusted p-values separately on contrast using CP4P
Usage
separateAdjPval(x, pval.threshold = 1.05, method = 1)
Arguments
x |
a proteins x contrasts dataframe of (raw) p-values |
pval.threshold |
all the p-values above the threshold are not considered. Default is 1.05 (which is equivalent to have no threshold). Applying a threshold nearby 1 can be instrumental to improve the uniformity under the null, notably in case of upstream mutliple contrat correction (for experienced users only) |
method |
a method to estimate pi_0, see CP4P |
Value
a proteins x contrasts table of adjusted p-values
Author(s)
Thomas Burger
Examples
data(Exp1_R25_prot, package='DAPARdata')
exdata <- Exp1_R25_prot[1:5,]
separateAdjPval(testAnovaModels(applyAnovasOnProteins(exdata), "TukeyHSD")$P_Value)
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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