xVisKernels: Function to visualise distance kernel functions

In XGR: Exploring Genomic Relations for Enhanced Interpretation Through Enrichment, Similarity, Network and Annotation Analysis

Description

xVisKernels is supposed to visualise distance kernels, each of which is a decaying function of: i) the relative distance d_{gs} between the gene g and the SNP s, and ii) the decay exponent λ.

Usage

xVisKernels(exponent = 2, newpage = T)

Arguments

exponent	an integer specifying decay exponent. By default, it sets to 2
newpage	logical to indicate whether to open a new page. By default, it sets to true for opening a new page

Value

invisible

Note

There are five kernels that are currently supported:

• For "slow decay" kernel, h_{ds}(t)={1-{d_{gs}/D}λ}*(d_{gs} ≤ D)

• For "linear decay" kernel, h_{ds}(t)={1-d_{gs}/D}*(d_{gs} ≤ D)

• For "rapid decay" kernel, h_{ds}(t)={{1-d_{gs}/D}^λ}*(d_{gs} ≤ D)

See Also

xSNP2nGenes

Examples

# visualise distance kernels
xVisKernels(exponent=2)
xVisKernels(exponent=3)

XGR documentation built on Jan. 8, 2020, 5:06 p.m.