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DEploid-dev · Dec 8, 2024 · 05ef50d · 05ef50d
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diff --git a/.Rbuildignore b/.Rbuildignore
@@ -13,3 +13,4 @@ DEploid.utils/libs/DEploid.utils.so
 \*\.png
 \*\.pdf
 DEploid-vcf-lib
+codecov.yml
diff --git a/R/all_tools.R b/R/all_tools.R
@@ -288,7 +288,7 @@ plotWSAFvsPLAF <- function(plaf, obsWSAF, expWSAF = c(), potentialOutliers = c()
 #'
 #' @examples
 #' vcfFile <- system.file("extdata", "PG0390-C.test.vcf.gz", package = "DEploid.utils")
-#' PG0390CoverageVcf <- extractCoverageFromVcf(vcfFile)
+#' PG0390CoverageVcf <- extractCoverageFromVcf(vcfFile, "PG0390-C")
 #' obsWSAF <- computeObsWSAF(PG0390CoverageVcf$altCount, PG0390CoverageVcf$refCount)
 #' plafFile <- system.file("extdata", "labStrains.test.PLAF.txt", package = "DEploid.utils")
 #' # this example is not finished
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@@ Expand Up / @@ -13,3 +13,4 @@ DEploid.utils/libs/DEploid.utils.so @@
     \*\.png
     \*\.pdf
     DEploid-vcf-lib
+    codecov.yml