@@ -113,15 +113,15 @@ Citation
- Barriere O, Rich B, Craig J, Mouksassi S (2023).
+
Barriere O, Rich B, Craig J, Mouksassi S (2024).
tidyvpc: VPC Percentiles and Prediction Intervals.
-R package version 1.5.0, https://github.com/certara/tidyvpc.
+R package version 1.5.1, https://github.com/certara/tidyvpc.
@Manual{,
title = {tidyvpc: VPC Percentiles and Prediction Intervals},
author = {Olivier Barriere and Benjamin Rich and James Craig and Samer Mouksassi},
- year = {2023},
- note = {R package version 1.5.0},
+ year = {2024},
+ note = {R package version 1.5.1},
url = {https://github.com/certara/tidyvpc},
}
diff --git a/docs/index.html b/docs/index.html
index 894b1d9..90e4b22 100644
--- a/docs/index.html
+++ b/docs/index.html
@@ -45,7 +45,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
@@ -105,7 +105,7 @@
-
+
Overview
@@ -266,7 +266,7 @@
Developers
- Olivier Barriere
Author
- Benjamin Rich
Author
-- James Craig
Author, maintainer
+- James Craig
Author, maintainer
- Samer Mouksassi
Author
- Certara USA, Inc.
Copyright holder, funder
- More about authors...
diff --git a/docs/news/index.html b/docs/news/index.html
index 789fbe6..f4900b0 100644
--- a/docs/news/index.html
+++ b/docs/news/index.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
@@ -75,6 +75,10 @@ Changelog
Source: NEWS.md
+
+
+
- Patch release that ensures unit tests do not fail when env var
_R_CHECK_DEPENDS_ONLY_=true in R CMD check. As a result, the cluster dependency has been moved from Suggests to Imports.
+
- Support for generating percentage blq/alq plots using
plot.tidyvpcobj. For VPC with censoring(), users can supply arguments censoring.type (options are 'none', 'blq', 'alq', or 'both', defaults to ‘none’) and censoring.output (options are 'grid' or 'list', defaults to 'grid').#21
@@ -88,6 +92,8 @@
@@ -100,7 +106,6 @@
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
index 348fa19..781150d 100644
--- a/docs/pkgdown.yml
+++ b/docs/pkgdown.yml
@@ -7,5 +7,5 @@ articles:
tidyvpc_nlmixr2: tidyvpc_nlmixr2.html
tidyvpc_RsNLME: tidyvpc_RsNLME.html
tidyvpc_whats_new: tidyvpc_whats_new.html
-last_built: 2023-10-30T20:14Z
+last_built: 2024-02-12T16:32Z
diff --git a/docs/reference/bininfo.html b/docs/reference/bininfo.html
index 912d2b8..bacf716 100644
--- a/docs/reference/bininfo.html
+++ b/docs/reference/bininfo.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
Examples
# Binless example with user specified lambda values stratified on
# "GENDER" with 2 levels ("M", "F"), 10%, 50%, 90% quantiles.
- lambda_strat <- data.table(
+ lambda_strat <- data.table(
GENDER_M = c(3,5,2),
GENDER_F = c(1,3,4)
)
diff --git a/docs/reference/binning.html b/docs/reference/binning.html
index 698e13a..315bcf0 100644
--- a/docs/reference/binning.html
+++ b/docs/reference/binning.html
@@ -24,7 +24,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
@@ -186,7 +186,7 @@ Examples
simulated(sim_data, y=DV) %>%
stratify(~ GENDER) %>%
binning(stratum = list(GENDER = "M"), bin = "jenks", nbins = 5, by.strata = TRUE) %>%
- binning(stratum = list(GENDER = "F"), bin = "pam", nbins = 4, by.strata = TRUE) %>%
+ binning(stratum = list(GENDER = "F"), bin = "kmeans", nbins = 4, by.strata = TRUE) %>%
vpcstats()
# Binning Categorical DV using rounded time variable
diff --git a/docs/reference/binningfunctions.html b/docs/reference/binningfunctions.html
index 29af50b..225c0ed 100644
--- a/docs/reference/binningfunctions.html
+++ b/docs/reference/binningfunctions.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
@@ -126,48 +126,45 @@ Examples
x <- c(rnorm(10, 1, 1), rnorm(10, 3, 2), rnorm(20, 5, 3))
centers <- c(1, 3, 5)
nearest(centers)(x)
-#> [1] 1 1 1 1 3 1 1 1 3 3 1 1 5 1 5 3 3 3 1 5 3 3 5 5 3 5 5 5 5 5 5 5 5 5 1 1 5 5
+#> [1] 3 1 1 3 1 1 1 1 1 1 3 3 3 5 1 3 3 1 3 3 5 3 5 3 1 5 3 5 1 5 1 5 5 5 5 5 1 5
#> [39] 5 5
breaks <- c(2, 4)
cut_at(breaks)(x)
-#> [1] "[-1.72,2)" "[-1.72,2)" "[-1.72,2)" "[-1.72,2)" "[2,4)" "[-1.72,2)"
-#> [7] "[-1.72,2)" "[-1.72,2)" "[2,4)" "[2,4)" "[-1.72,2)" "[-1.72,2)"
-#> [13] "[4,10.7]" "[-1.72,2)" "[4,10.7]" "[2,4)" "[2,4)" "[2,4)"
-#> [19] "[-1.72,2)" "[4,10.7]" "[2,4)" "[2,4)" "[4,10.7]" "[4,10.7]"
-#> [25] "[2,4)" "[4,10.7]" "[4,10.7]" "[4,10.7]" "[4,10.7]" "[4,10.7]"
-#> [31] "[4,10.7]" "[4,10.7]" "[4,10.7]" "[4,10.7]" "[-1.72,2)" "[-1.72,2)"
-#> [37] "[4,10.7]" "[4,10.7]" "[4,10.7]" "[4,10.7]"
+#> [1] "[2,4)" "[-3.52,2)" "[-3.52,2)" "[2,4)" "[-3.52,2)" "[-3.52,2)"
+#> [7] "[-3.52,2)" "[-3.52,2)" "[-3.52,2)" "[-3.52,2)" "[2,4)" "[2,4)"
+#> [13] "[2,4)" "[4,8.78]" "[-3.52,2)" "[2,4)" "[2,4)" "[-3.52,2)"
+#> [19] "[2,4)" "[2,4)" "[4,8.78]" "[2,4)" "[4,8.78]" "[2,4)"
+#> [25] "[-3.52,2)" "[4,8.78]" "[2,4)" "[4,8.78]" "[-3.52,2)" "[4,8.78]"
+#> [31] "[-3.52,2)" "[4,8.78]" "[4,8.78]" "[4,8.78]" "[4,8.78]" "[4,8.78]"
+#> [37] "[-3.52,2)" "[4,8.78]" "[4,8.78]" "[4,8.78]"
bin_by_eqcut(nbins=4)(x)
-#> [1] "[-1.72,1.56)" "[-1.72,1.56)" "[-1.72,1.56)" "[-1.72,1.56)" "[1.56,3.48)"
-#> [6] "[-1.72,1.56)" "[-1.72,1.56)" "[1.56,3.48)" "[1.56,3.48)" "[1.56,3.48)"
-#> [11] "[1.56,3.48)" "[1.56,3.48)" "[5.74,10.7]" "[-1.72,1.56)" "[3.48,5.74)"
-#> [16] "[3.48,5.74)" "[1.56,3.48)" "[3.48,5.74)" "[-1.72,1.56)" "[3.48,5.74)"
-#> [21] "[1.56,3.48)" "[1.56,3.48)" "[3.48,5.74)" "[5.74,10.7]" "[1.56,3.48)"
-#> [26] "[5.74,10.7]" "[3.48,5.74)" "[5.74,10.7]" "[5.74,10.7]" "[3.48,5.74)"
-#> [31] "[5.74,10.7]" "[3.48,5.74)" "[5.74,10.7]" "[5.74,10.7]" "[-1.72,1.56)"
-#> [36] "[-1.72,1.56)" "[3.48,5.74)" "[5.74,10.7]" "[5.74,10.7]" "[3.48,5.74)"
+#> [1] "[1.33,3.2)" "[-3.52,1.33)" "[-3.52,1.33)" "[1.33,3.2)" "[-3.52,1.33)"
+#> [6] "[1.33,3.2)" "[-3.52,1.33)" "[-3.52,1.33)" "[-3.52,1.33)" "[1.33,3.2)"
+#> [11] "[3.2,6.16)" "[3.2,6.16)" "[1.33,3.2)" "[3.2,6.16)" "[-3.52,1.33)"
+#> [16] "[1.33,3.2)" "[3.2,6.16)" "[1.33,3.2)" "[3.2,6.16)" "[3.2,6.16)"
+#> [21] "[6.16,8.78]" "[1.33,3.2)" "[6.16,8.78]" "[1.33,3.2)" "[-3.52,1.33)"
+#> [26] "[3.2,6.16)" "[3.2,6.16)" "[3.2,6.16)" "[-3.52,1.33)" "[6.16,8.78]"
+#> [31] "[-3.52,1.33)" "[6.16,8.78]" "[6.16,8.78]" "[3.2,6.16)" "[6.16,8.78]"
+#> [36] "[6.16,8.78]" "[1.33,3.2)" "[6.16,8.78]" "[6.16,8.78]" "[6.16,8.78]"
bin_by_ntile(nbins=4)(x)
-#> [1] 1 1 1 1 2 1 1 2 2 2 2 2 4 1 3 3 2 3 1 3 2 2 3 4 2 4 3 4 4 3 4 3 4 4 1 1 3 4
-#> [39] 4 3
+#> [1] 2 1 1 2 1 2 1 1 1 2 3 3 2 3 1 2 3 2 3 3 4 2 4 2 1 3 3 3 1 4 1 4 4 3 4 4 2 4
+#> [39] 4 4
-# \donttest{
bin_by_pam(nbins=4)(x)
-#> [1] 0.1270899 0.1270899 0.1270899 0.1270899 2.1734419 0.1270899 2.1734419
-#> [8] 2.1734419 2.1734419 2.1734419 2.1734419 2.1734419 7.0146683 0.1270899
-#> [15] 4.4337703 4.4337703 2.1734419 4.4337703 0.1270899 4.4337703 2.1734419
-#> [22] 4.4337703 4.4337703 7.0146683 2.1734419 7.0146683 4.4337703 7.0146683
-#> [29] 7.0146683 4.4337703 7.0146683 4.4337703 7.0146683 7.0146683 0.1270899
-#> [36] 0.1270899 4.4337703 7.0146683 7.0146683 4.4337703
+#> [1] 3.211396 1.167246 1.167246 3.211396 1.167246 1.167246 1.167246
+#> [8] 1.167246 1.167246 1.167246 3.211396 3.211396 1.167246 6.855176
+#> [15] 1.167246 3.211396 3.211396 1.167246 3.211396 3.211396 6.855176
+#> [22] 3.211396 6.855176 3.211396 -3.520710 6.855176 3.211396 3.211396
+#> [29] 1.167246 6.855176 1.167246 6.855176 6.855176 6.855176 6.855176
+#> [36] 6.855176 1.167246 6.855176 6.855176 6.855176
bin_by_classInt("pretty", nbins=4)(x)
-#> [1] "[0,5)" "[-5,0)" "[0,5)" "[-5,0)" "[0,5)" "[0,5)" "[0,5)"
-#> [8] "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[5,10)" "[0,5)"
-#> [15] "[5,10)" "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[0,5)"
-#> [22] "[0,5)" "[0,5)" "[5,10)" "[0,5)" "[5,10)" "[0,5)" "[5,10)"
-#> [29] "[5,10)" "[0,5)" "[5,10)" "[0,5)" "[5,10)" "[10,15]" "[-5,0)"
-#> [36] "[-5,0)" "[5,10)" "[5,10)" "[5,10)" "[0,5)"
-# }
+#> [1] "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[-5,0)" "[-5,0)"
+#> [9] "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[5,10]" "[0,5)" "[0,5)"
+#> [17] "[0,5)" "[0,5)" "[0,5)" "[0,5)" "[5,10]" "[0,5)" "[5,10]" "[0,5)"
+#> [25] "[-5,0)" "[5,10]" "[0,5)" "[0,5)" "[0,5)" "[5,10]" "[0,5)" "[5,10]"
+#> [33] "[5,10]" "[5,10]" "[5,10]" "[5,10]" "[0,5)" "[5,10]" "[5,10]" "[5,10]"
diff --git a/docs/reference/censoring.html b/docs/reference/censoring.html
index c46a4f7..1a0a750 100644
--- a/docs/reference/censoring.html
+++ b/docs/reference/censoring.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/check_order.html b/docs/reference/check_order.html
index 9962a19..36262ea 100644
--- a/docs/reference/check_order.html
+++ b/docs/reference/check_order.html
@@ -25,7 +25,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/generics.html b/docs/reference/generics.html
index a06fdaa..c90edfa 100644
--- a/docs/reference/generics.html
+++ b/docs/reference/generics.html
@@ -25,7 +25,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/index.html b/docs/reference/index.html
index b873080..d2b16f9 100644
--- a/docs/reference/index.html
+++ b/docs/reference/index.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/nopredcorrect.html b/docs/reference/nopredcorrect.html
index c578ce1..4e18138 100644
--- a/docs/reference/nopredcorrect.html
+++ b/docs/reference/nopredcorrect.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/npde.html b/docs/reference/npde.html
index 6191aa0..4a4d1c4 100644
--- a/docs/reference/npde.html
+++ b/docs/reference/npde.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/obs_cat_data.html b/docs/reference/obs_cat_data.html
index 14089db..50de19b 100644
--- a/docs/reference/obs_cat_data.html
+++ b/docs/reference/obs_cat_data.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/obs_data.html b/docs/reference/obs_data.html
index e9290f5..d179eb6 100644
--- a/docs/reference/obs_data.html
+++ b/docs/reference/obs_data.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/observed.html b/docs/reference/observed.html
index 789854d..69f3ed6 100644
--- a/docs/reference/observed.html
+++ b/docs/reference/observed.html
@@ -24,7 +24,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/plot.tidyvpcobj.html b/docs/reference/plot.tidyvpcobj.html
index 9385016..a3f50f6 100644
--- a/docs/reference/plot.tidyvpcobj.html
+++ b/docs/reference/plot.tidyvpcobj.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/predcorrect.html b/docs/reference/predcorrect.html
index a7eb1f8..14fff6e 100644
--- a/docs/reference/predcorrect.html
+++ b/docs/reference/predcorrect.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/print.tidyvpcobj.html b/docs/reference/print.tidyvpcobj.html
index c7c770d..fd9a768 100644
--- a/docs/reference/print.tidyvpcobj.html
+++ b/docs/reference/print.tidyvpcobj.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/sim_cat_data.html b/docs/reference/sim_cat_data.html
index cbcbe7c..31483c0 100644
--- a/docs/reference/sim_cat_data.html
+++ b/docs/reference/sim_cat_data.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/sim_data.html b/docs/reference/sim_data.html
index 68d7da9..0d19e26 100644
--- a/docs/reference/sim_data.html
+++ b/docs/reference/sim_data.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/simulated.html b/docs/reference/simulated.html
index 4c5d707..0be3cf9 100644
--- a/docs/reference/simulated.html
+++ b/docs/reference/simulated.html
@@ -25,7 +25,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/stratify.html b/docs/reference/stratify.html
index d6426a1..dbdb8b7 100644
--- a/docs/reference/stratify.html
+++ b/docs/reference/stratify.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
diff --git a/docs/reference/vpcstats.html b/docs/reference/vpcstats.html
index 75a4d0c..21a8444 100644
--- a/docs/reference/vpcstats.html
+++ b/docs/reference/vpcstats.html
@@ -23,7 +23,7 @@
tidyvpc
- 1.5.0
+ 1.5.1
