This function is automatically called by
normal and tumor coverage are provided (and not a segmentation file or
target-level log-ratios). This function is therefore normally not called by
Normal coverage read in by the
Tumor coverage read in by the
numeric(length(tumor)), tumor vs. normal copy number log-ratios
for all targets.
1 2 3 4 5 6 7
normal.coverage.file <- system.file("extdata", "example_normal.txt", package="PureCN") tumor.coverage.file <- system.file("extdata", "example_tumor.txt", package="PureCN") normal <- readCoverageFile(normal.coverage.file) tumor <- readCoverageFile(tumor.coverage.file) log.ratio <- calculateLogRatio(normal, tumor)
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