v0.4.1

.github/workflows/CompatHelper.yml

@@ -0,0 +1,16 @@
+name: CompatHelper
+on:
+  schedule:
+    - cron: 43 7 * * *
+  workflow_dispatch:
+jobs:
+  CompatHelper:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Pkg.add("CompatHelper")
+        run: julia -e 'using Pkg; Pkg.add("CompatHelper")'
+      - name: CompatHelper.main()
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+          COMPATHELPER_PRIV: ${{ secrets.DOCUMENTER_KEY }}
+        run: julia -e 'using CompatHelper; CompatHelper.main(; master_branch = "dev")'

Project.toml

@@ -1,34 +1,34 @@
-authors = ["Vladimir Arnautov (mail@pharmcat.net)"]
 name = "ClinicalTrialUtilities"
 uuid = "535c2557-d7d0-564d-8ff9-4ae146c18cfe"
-version = "0.4.0"
+authors = ["Vladimir Arnautov (mail@pharmcat.net)"]
+version = "0.4.1"
 
 [deps]
-Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
+DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
 Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
-StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
 QuadGK = "1fd47b50-473d-5c70-9696-f719f8f3bcdc"
-SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"
-Roots = "f2b01f46-fcfa-551c-844a-d8ac1e96c665"
+Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
 RecipesBase = "3cdcf5f2-1ef4-517c-9805-6587b60abb01"
 Reexport = "189a3867-3050-52da-a836-e630ba90ab69"
-DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
+Roots = "f2b01f46-fcfa-551c-844a-d8ac1e96c665"
+SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"
+StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
+
+[compat]
+DataFrames = "0.19, 0.20, 0.21, 0.22"
+Distributions = "0.16, 0.17, 0.18, 0.19, 0.20, 0.21, 0.22, 0.23, 0.24"
+QuadGK = "2.0, 2.1, 2.2, 2.3, 2.4"
+RecipesBase = "0.7, 0.8, 1"
+Reexport = "0.1, 0.2, 1.0"
+Roots = "0.7, 0.8, 1"
+SpecialFunctions = "0.8, 0.9, 0.10, 1"
+StatsBase = "0.22, 0.23, 0.24, 0.25, 0.26, 0.27, 0.28, 0.29, 0.30, 0.31, 0.32, 0.33"
+julia = "1.0, 1.1, 1.2, 1.3, 1.4, 1.5"
 
 [extras]
 CSV = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"
-Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80"
+Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 
 [targets]
 test = ["CSV", "Test", "Plots"]
-
-[compat]
-julia = "1.0, 1.1, 1.2, 1.3, 1.4, 1.5"
-Distributions = "0.16, 0.17, 0.18, 0.19, 0.20, 0.21, 0.22, 0.23, 0.24"
-StatsBase = "0.22, 0.23, 0.24, 0.25, 0.26, 0.27, 0.28, 0.29, 0.30, 0.31, 0.32, 0.33"
-QuadGK = "2.0, 2.1, 2.2, 2.3, 2.4"
-SpecialFunctions = "0.8, 0.9, 0.10, 1"
-Roots = "0.7, 0.8, 1"
-RecipesBase = "0.7, 0.8, 1"
-Reexport = "0.1, 0.2"
-DataFrames = "0.19, 0.20, 0.21, 0.22"

cange.log

@@ -1,5 +1,9 @@
-v0.4.0
+v0.4.1
+  - cox samplen
+  - datatable
+  - printdesigns
 
+v0.4.0
   - remove DataFrames interim
   - minor fix
 
@@ -10,7 +14,6 @@ v0.3.2
   - bump dependencies
 
 v0.3.1
-
   - deleteat! fix
   - simulation crush fix
   - Equivalence Hypothesis alpha level fix!
@@ -45,7 +48,6 @@ v0.2.7
   - test update
 
 v0.2.6
-
   - findfirst
   - Documents update
   - export applyncarule!
@@ -59,12 +61,10 @@ v0.2.6
   - Docs
 
 v0.2.5
-
   - SpecialFunctions 0.10
   - RecipesBase 0.8
 
 v0.2.4
-
   - PK: drop observation before dosetime
   - Roots Version 1.0
   - Distributions 23.0
@@ -80,7 +80,6 @@ v0.2.4
   - Cosmetics
 
 v0.2.3
-
   - ConTab struct
   - Urine PK
   - NCA Tau PK partial areas fix
@@ -109,7 +108,6 @@ v0.2.1
   - cosmetics
 
 v0.2.0
-
   Breaking changes(!):
 
   - Renamed exported functions: ctsamplen, ctpower, besamplen, bepower, ets (now in lower case).
@@ -149,20 +147,17 @@ v0.2.0
   - Minor changes, bugfix, code cleaning, cosmetics.
 
 v0.1.16
-
   - Split PK/PD
   - New PD param
   - Column dictionary
 
 v0.1.15
-
   - Add RR CI Katz Test
   - Julian function names (part)
   - Rename descriptives -> descriptive
   - export freque, contab
   - minor changes, bugfix, code cleaning
 
-
 v0.1.14
   - Add compat to Project.toml
   - Julian function names (part)
@@ -194,10 +189,8 @@ v0.1.12
   - Frequency initial commit - alpha
 
 v0.1.11
-
   - nca hotfix
   - add test
-
   - descriptives()
   - html export - initial, not final
   - StatsBase, Statistics in deps
@@ -207,16 +200,13 @@ v0.1.11
 
 
 v0.1.10
-
 - add Cochran–Mantel–Haenszel confidence intervals
 - add documentation and comments
 - improve coverage
 - add tests
 - code cosmetics
 
-
 v0.1.9
-
 - add PK module
 - pooledCV
 - add DataFrames to dependencies
@@ -226,7 +216,6 @@ v0.1.9
 
 
 v0.1.8
-
   - bugfix (meanNormCI, text output)
   - wald ci include
   - add test
@@ -236,7 +225,6 @@ v0.1.8
 
 
 v1.0.7
-
 Add sub-module CI for confidence interval computation as part of simulation functions SIM.
   - add Roots in dependencies for mee/fm score ci calc
   - add Random in dependencies for simulations

src/ClinicalTrialUtilities.jl

@@ -97,6 +97,7 @@ bepower,
 cvfromci,
 cvfromvar,
 pooledcv,
+printdesigns,
 #Other
 descriptive,
 freque,
@@ -130,6 +131,7 @@ applyelimrange!,
 keldata,
 setkelauto!,
 getkelauto,
+datatable,
 # Simulation
 ctsim,
 besim,

src/design.jl

@@ -74,3 +74,24 @@ end
     end
     return sqrt(sum(1 ./ sqa)*d.bkni)
 end
+
+function printdesigns()
+    v = [:parallel, :d2x2, :d2x2x3, :d2x2x4, :d2x4x4, :d2x3x3, :d2x4x2, :d3x3, :d4x4, :d3x6x3]
+    df = ["n - 1", "n - 2", "2n - 3", "3n - 4", "3n - 4", "2n - 3", "n - 2", "2n - 4", "3n - 6", "2n - 4"]
+    name = ["Parallel",  "Crossover",
+    "Replicate crossover", "Replicate  crossover", "Replicate  crossover",
+    "Partial replicate crossover", "Balaam's", "Crossover", "Crossover", "Crossover"]
+    mx = Matrix{String}(undef, length(v)+1, 5)
+    view(mx, 1, 1:5) .= ["Name", "Symbol", "DF", "bkni", "Sequences"]
+    for i = 1:length(v)
+        d = Design(v[i])
+        r = i + 1
+        mx[r, 2] = string(v[i])
+        mx[r, 4] = string(d.bkni)
+        mx[r, 5] = string(d.sq)
+        view(mx, 2:11, 3) .= df
+        view(mx, 2:11, 1) .= name
+    end
+    mx[2,5] = "-"
+    printmatrix(stdout, mx)
+end