diff --git a/articles/VplotR_files/figure-html/unnamed-chunk-8-1.png b/articles/VplotR_files/figure-html/unnamed-chunk-8-1.png
index c71b5e4..5085d53 100644
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diff --git a/reference/nucleosomeEnrichment-1.png b/reference/nucleosomeEnrichment-1.png
index 0040e3f..106fa01 100644
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diff --git a/reference/nucleosomeEnrichment.GRanges-1.png b/reference/nucleosomeEnrichment.GRanges-1.png
index 0adee16..d2df4f7 100644
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diff --git a/reference/nucleosomeEnrichment.GRanges.html b/reference/nucleosomeEnrichment.GRanges.html
index c1355f9..781ee09 100644
--- a/reference/nucleosomeEnrichment.GRanges.html
+++ b/reference/nucleosomeEnrichment.GRanges.html
@@ -103,13 +103,13 @@ Examples
#> Fisher's Exact Test for Count Data
#>
#> data: matrix(vec, ncol = 2)
-#> p-value = 0.2241
+#> p-value = 0.8227
#> alternative hypothesis: true odds ratio is not equal to 1
#> 95 percent confidence interval:
-#> 0.5700587 26.2983486
+#> 0.4141458 3.0139383
#> sample estimates:
#> odds ratio
-#> 2.760675
+#> 1.133024
#>
n$plot
diff --git a/reference/nucleosomeEnrichment.Vmat-1.png b/reference/nucleosomeEnrichment.Vmat-1.png
index fec0ac5..ab07de6 100644
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diff --git a/reference/nucleosomeEnrichment.Vmat.html b/reference/nucleosomeEnrichment.Vmat.html
index fe1f720..7cd1929 100644
--- a/reference/nucleosomeEnrichment.Vmat.html
+++ b/reference/nucleosomeEnrichment.Vmat.html
@@ -111,19 +111,19 @@ Examples
#> No normalization applied
#> Smoothing the matrix
n <- nucleosomeEnrichment(V, V_bg)
-#> Warning: 'x' has been rounded to integer: Mean relative difference: 0.0002682643
+#> Warning: 'x' has been rounded to integer: Mean relative difference: 0.0002458412
n$fisher_test
#>
#> Fisher's Exact Test for Count Data
#>
#> data: matrix(vec, ncol = 2)
-#> p-value = 0.1335
+#> p-value = 0.1392
#> alternative hypothesis: true odds ratio is not equal to 1
#> 95 percent confidence interval:
-#> 0.1795564 1.2685293
+#> 0.6624351 16.2053490
#> sample estimates:
#> odds ratio
-#> 0.4952583
+#> 2.765101
#>
n$plot
diff --git a/reference/nucleosomeEnrichment.html b/reference/nucleosomeEnrichment.html
index 68f537b..ad3e0da 100644
--- a/reference/nucleosomeEnrichment.html
+++ b/reference/nucleosomeEnrichment.html
@@ -89,13 +89,13 @@ Examples
#> Fisher's Exact Test for Count Data
#>
#> data: matrix(vec, ncol = 2)
-#> p-value = 0.08809
+#> p-value = 0.06783
#> alternative hypothesis: true odds ratio is not equal to 1
#> 95 percent confidence interval:
-#> 0.842456 13.454148
+#> 0.8543144 39.3801981
#> sample estimates:
#> odds ratio
-#> 3.023763
+#> 4.135035
#>
n$plot
diff --git a/reference/sampleGRanges.GRanges.html b/reference/sampleGRanges.GRanges.html
index ea94520..1b24255 100644
--- a/reference/sampleGRanges.GRanges.html
+++ b/reference/sampleGRanges.GRanges.html
@@ -109,17 +109,17 @@ Examples
#> GRanges object with 100 ranges and 0 metadata columns:
#> seqnames ranges strand
#> <Rle> <IRanges> <Rle>
-#> [1] chrI 4592226-4592376 +
-#> [2] chrI 5204405-5204555 +
-#> [3] chrI 5486576-5486726 +
-#> [4] chrI 5853685-5853835 +
-#> [5] chrI 7356116-7356266 +
+#> [1] chrI 299998-300148 +
+#> [2] chrI 4059565-4059715 +
+#> [3] chrI 6350239-6350389 +
+#> [4] chrI 11290093-11290243 +
+#> [5] chrI 11578453-11578603 +
#> ... ... ... ...
-#> [96] chrX 9400268-9400418 -
-#> [97] chrX 11818381-11818531 -
-#> [98] chrX 12020939-12021089 -
-#> [99] chrX 14172154-14172304 -
-#> [100] chrX 17055305-17055455 -
+#> [96] chrX 7542159-7542309 -
+#> [97] chrX 8141320-8141470 -
+#> [98] chrX 13845450-13845600 -
+#> [99] chrX 15267074-15267224 -
+#> [100] chrX 15937727-15937877 -
#> -------
#> seqinfo: 6 sequences from an unspecified genome; no seqlengths
diff --git a/reference/sampleGRanges.html b/reference/sampleGRanges.html
index cc75bc3..5597583 100644
--- a/reference/sampleGRanges.html
+++ b/reference/sampleGRanges.html
@@ -108,17 +108,17 @@ Examples
#> GRanges object with 100 ranges and 0 metadata columns:
#> seqnames ranges strand
#> <Rle> <IRanges> <Rle>
-#> [1] chrI 806918-807068 +
-#> [2] chrI 3934434-3934584 +
-#> [3] chrI 5943766-5943916 +
-#> [4] chrI 8580264-8580414 +
-#> [5] chrI 9147380-9147530 +
+#> [1] chrI 1610448-1610598 +
+#> [2] chrI 2544450-2544600 +
+#> [3] chrI 2794866-2795016 +
+#> [4] chrI 3864466-3864616 +
+#> [5] chrI 6057549-6057699 +
#> ... ... ... ...
-#> [96] chrX 7495106-7495256 -
-#> [97] chrX 7684706-7684856 -
-#> [98] chrX 11332251-11332401 -
-#> [99] chrX 13388557-13388707 -
-#> [100] chrX 14549643-14549793 -
+#> [96] chrX 14099795-14099945 -
+#> [97] chrX 14254630-14254780 -
+#> [98] chrX 16527369-16527519 -
+#> [99] chrX 17597686-17597836 -
+#> [100] chrX 17699646-17699796 -
#> -------
#> seqinfo: 6 sequences from an unspecified genome; no seqlengths