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Boundary-Region Merge Settings

Source: R/ctwasPipeline.R
BoundaryMergeParam.Rd

Whether a high-PIP gene whose cis window straddles an LD-block boundary has its adjacent regions merged and re-fine-mapped after each run (mergeCtwasBoundaryRegions).

Usage

BoundaryMergeParam(
  enabled = FALSE,
  pipThreshold = 0.5,
  filterCs = FALSE,
  maxSnp = Inf
)

Arguments

enabled

Logical. Run the merge step. Default FALSE; the other three fields are read only when this is TRUE.

pipThreshold

Numeric. PIP threshold for selecting which boundary genes to merge. Default 0.5.

filterCs

Logical. Require the boundary gene to be in a credible set to be selected. Default FALSE.

maxSnp

Numeric. Per-merged-region SNP cap. Default Inf.

Value

A BoundaryMergeParam object, a MethodParam.

Examples

BoundaryMergeParam(enabled = TRUE, pipThreshold = 0.8)
#> <BoundaryMergeParam>
#>   enabled                  TRUE
#>   pipThreshold             0.8
#>   filterCs                 FALSE
#>   maxSnp                   Inf