GEO_EstimateMissingValues_Methylation: The GEO_EstimateMissingValues_Methylation function
In gevaertlab/EpiMix: EpiMix: an integrative tool for the population-level analysis of DNA methylation
View source: R/GEO_Download_Preprocess.R
GEO_EstimateMissingValues_Methylation R Documentation
The GEO_EstimateMissingValues_Methylation function
Description
Internal. Removes samples and probes with more missing values than the MissingValueThreshold, and imputes remaining missing values using Tibshirani's KNN method.
Usage
GEO_EstimateMissingValues_Methylation(
MET_Data,
MissingValueThresholdGene = 0.3,
MissingValueThresholdSample = 0.3
)
Arguments
MET_Data
methylation data or gene expression data matrix.
MissingValueThresholdGene
threshold for missing values per gene. Genes with a percentage of NAs greater than this threshold are removed. Default is 0.3.
MissingValueThresholdSample
threshold for missing values per sample. Samples with a percentage of NAs greater than this threshold are removed. Default is 0.1.
Value
the dataset with imputed values and possibly some genes or samples deleted.
gevaertlab/EpiMix documentation built on July 20, 2023, 9:28 a.m.
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View source: R/GEO_Download_Preprocess.R
| GEO_EstimateMissingValues_Methylation | R Documentation |
The GEO_EstimateMissingValues_Methylation function
Description
Internal. Removes samples and probes with more missing values than the MissingValueThreshold, and imputes remaining missing values using Tibshirani's KNN method.
Usage
GEO_EstimateMissingValues_Methylation(
MET_Data,
MissingValueThresholdGene = 0.3,
MissingValueThresholdSample = 0.3
)
Arguments
MET_Data |
methylation data or gene expression data matrix. |
MissingValueThresholdGene |
threshold for missing values per gene. Genes with a percentage of NAs greater than this threshold are removed. Default is 0.3. |
MissingValueThresholdSample |
threshold for missing values per sample. Samples with a percentage of NAs greater than this threshold are removed. Default is 0.1. |
Value
the dataset with imputed values and possibly some genes or samples deleted.
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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