Merge pull request #335 from tinyheero/retain-exon-lrs

Return the exon.lrs variable to the returned list object of runAbsoluteCN()
lima1 · Dec 7, 2023 · 9be1f2e · 9be1f2e
2 parents d3a8181 + 576f726
commit 9be1f2e
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/R/runAbsoluteCN.R b/R/runAbsoluteCN.R
@@ -1153,6 +1153,7 @@ runAbsoluteCN <- function(normal.coverage.file = NULL,
             mapping.bias.rho = if (is.null(rho) || all(is.na(rho))) NULL else mean(rho, na.rm = TRUE),
             vcf.field.prefix = vcf.field.prefix,
             interval.file = interval.file,
+            interval.lrs = exon.lrs,
             args = list(
                 filterVcf = args.filterVcf[vapply(args.filterVcf, object.size, double(1)) < 1000],
                 filterIntervals = args.filterIntervals[vapply(args.filterIntervals, object.size, double(1)) < 1000])