extractOpenClosed: Get the open and closed compartment calls based on sign of...
In biobenkj/compartmap: Higher-order chromatin domain inference in single samples from methylation arrays and single cells from scRNA-seq and scATAC-seq
extractOpenClosed R Documentation
Get the open and closed compartment calls based on sign of singular values
Description
Get the open and closed compartment calls based on sign of singular values
Usage
extractOpenClosed(gr, cutoff = 0, assay = c("rna", "atac", "array"))
Arguments
gr
Input GRanges with associated mcols that represent singular values
cutoff
Threshold to define open and closed states
assay
The type of assay we are working with
Value
A vector of binary/categorical compartment states
Examples
dummy <- matrix(rnorm(10000), ncol=25)
sing_vec <- getSVD(dummy, k = 1, sing.vec = "right")
biobenkj/compartmap documentation built on Oct. 18, 2023, 11:11 a.m.
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.
| extractOpenClosed | R Documentation |
Get the open and closed compartment calls based on sign of singular values
Description
Get the open and closed compartment calls based on sign of singular values
Usage
extractOpenClosed(gr, cutoff = 0, assay = c("rna", "atac", "array"))
Arguments
gr |
Input GRanges with associated mcols that represent singular values |
cutoff |
Threshold to define open and closed states |
assay |
The type of assay we are working with |
Value
A vector of binary/categorical compartment states
Examples
dummy <- matrix(rnorm(10000), ncol=25)
sing_vec <- getSVD(dummy, k = 1, sing.vec = "right")
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.