build_reference_EPIC: Build the reference library for EPIC arrays
In jysonganan/methylDeConv: Computational pipeline for deconvolution of methylation data.
View source: R/buildReference.R
build_reference_EPIC R Documentation
Build the reference library for EPIC arrays
Description
Build the reference library for EPIC arrays to include "CD8T", "CD4T", "NK", "Bcell", "Mono", "Neu",
And extend the reference library for 450k to include "Epithelial" or "cfDNA".
Usage
build_reference_EPIC(extend = TRUE, include = "Epithelial")
Arguments
extend
If TRUE, generate the extended reference library; otherwise, generate the reference library of
only 6 immune cell types. Default value is TRUE.
include
If include = "Epithelial", extend the reference library by only adding epithelial cells;
if include = "cfDNA", extend the reference library by only adding cell free DNAs;
if include = "Epithelial and cfDNA", extend the reference library by add both epithelial and cell free DNAs.
Default value is "Epithelial".
Value
A list of beta value reference matrix (ref_betamatrix) and reference cell types (ref_phenotype).
jysonganan/methylDeConv documentation built on Aug. 8, 2022, 6:25 a.m.
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View source: R/buildReference.R
| build_reference_EPIC | R Documentation |
Build the reference library for EPIC arrays
Description
Build the reference library for EPIC arrays to include "CD8T", "CD4T", "NK", "Bcell", "Mono", "Neu", And extend the reference library for 450k to include "Epithelial" or "cfDNA".
Usage
build_reference_EPIC(extend = TRUE, include = "Epithelial")
Arguments
extend |
If TRUE, generate the extended reference library; otherwise, generate the reference library of only 6 immune cell types. Default value is TRUE. |
include |
If include = "Epithelial", extend the reference library by only adding epithelial cells; if include = "cfDNA", extend the reference library by only adding cell free DNAs; if include = "Epithelial and cfDNA", extend the reference library by add both epithelial and cell free DNAs. Default value is "Epithelial". |
Value
A list of beta value reference matrix (ref_betamatrix) and reference cell types (ref_phenotype).
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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