sqImpute: Impute missing values

In eahrne/SafeQuant: A Toolbox for the Analysis of Proteomics Data

Description

Impute missing values

Usage

sqImpute(eset, method = "gmin", rowmax = 0.3)

Arguments

eset	ExpressionSet
method	c("knn","ppca","gMin",lMin)
rowmax	The maximum percent missing data allowed in any row to apply ppca and knn (if more missing values impute gmin). default 0.3

Details

• gMin: half global minimum (0.1 percentile)

• lMin: half local minimum

• gMean: half global mean

• lMean: half local mean

• knn: Nearest neighbour averaging, as implemented in the impute::impute.knn function

• ppca: An iterative method using a probabilistic model to handle missing values, as implemented in the pcaMethods::pca function.

Value

ExpressionSet

Note

No note

References

Accounting for the Multiple Natures of Missing Values in Label-Free Quantitative Proteomics Data Sets to Compare Imputation Strategies, Lazar et al (2016), http://pubs.acs.org/doi/abs/10.1021/acs.jproteome.5b00981

See Also

No note

Examples

print("No examples")

eahrne/SafeQuant documentation built on April 8, 2021, 10:10 a.m.