cleanAssayCols: Remove columns/cells/samples with NAs exceeding a threshold
In biobenkj/compartmap: Higher-order chromatin domain inference in single samples from methylation arrays and single cells from scRNA-seq and scATAC-seq
cleanAssayCols R Documentation
Remove columns/cells/samples with NAs exceeding a threshold
Description
Remove columns/cells/samples with NAs exceeding a threshold
Usage
cleanAssayCols(se, colmax = 0.8, assay = c("array", "bisulfite"))
Arguments
se
Input SummarizedExperiment object
colmax
The maximum number of NAs allowed as a fraction
assay
The type of assay we are working with
Value
A filtered matrix
Examples
if (require(minfi)) {
data("meth_array_450k_chr14", package = "compartmap")
cleanAssayCols(array.data.chr14, assay = "array")
}
biobenkj/compartmap documentation built on Feb. 21, 2025, 9:14 p.m.
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| cleanAssayCols | R Documentation |
Remove columns/cells/samples with NAs exceeding a threshold
Description
Remove columns/cells/samples with NAs exceeding a threshold
Usage
cleanAssayCols(se, colmax = 0.8, assay = c("array", "bisulfite"))
Arguments
se |
Input SummarizedExperiment object |
colmax |
The maximum number of NAs allowed as a fraction |
assay |
The type of assay we are working with |
Value
A filtered matrix
Examples
if (require(minfi)) {
data("meth_array_450k_chr14", package = "compartmap")
cleanAssayCols(array.data.chr14, assay = "array")
}
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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