cleanAssayCols: Remove columns/cells/samples with NAs exceeding a threshold
In JordanVeldboom/compartmap: A/B compartment inference from ATAC-seq and methylation array data
Description
Usage
Arguments
Value
Examples
Description
Remove columns/cells/samples with NAs exceeding a threshold
Usage
1
cleanAssayCols(se, colmax = 0.8, assay = c("array", "atac", "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
1
2
data("meth_array_450k_chr14", package = "compartmap")
cleanAssayCols(array.data.chr.14, assay = "array")
JordanVeldboom/compartmap documentation built on July 3, 2020, 6:32 p.m.
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Description Usage Arguments Value Examples
Description
Remove columns/cells/samples with NAs exceeding a threshold
Usage
1 | cleanAssayCols(se, colmax = 0.8, assay = c("array", "atac", "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
1 2 | data("meth_array_450k_chr14", package = "compartmap")
cleanAssayCols(array.data.chr.14, 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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