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Run X-CNV with a file-compatible interface

Source: R/compatibility.R
run_xcnv.Rd

Read CNVs, compute annotations and MVP scores, and optionally write the output table. Unlike the historical executable, this function never writes beside the input by default and never installs software or downloads data.

Usage

run_xcnv(
  input,
  resources,
  model = NULL,
  output = NULL,
  overlap_backend = c("duckdb", "reference")
)

xcnv(
  input,
  resources,
  model = NULL,
  output = NULL,
  overlap_backend = c("duckdb", "reference")
)

Arguments

input

A CNV path, data frame, or matrix.

resources

An xcnv_resources object or explicit resource directory.

model

A model object/path, or NULL to use a resource-bundle override when present and otherwise the bundled published model.

output

NULL to return results without writing, or one explicit CSV path.

overlap_backend

Passed to annotate_cnv().

Value

A prediction data frame; the same object is returned invisibly when output is non-NULL.