updated readme.Rmd

asancpt · Aug 14, 2017 · bc96531 · bc96531
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diff --git a/README.Rmd b/README.Rmd
@@ -12,7 +12,6 @@ editor_options:
 library(knitr)
 knitr::opts_chunk$set(fig.width=8, fig.height=4, dev = 'png', dpi = 150, 
                       fig.path='assets/figures/', echo=TRUE, warning=FALSE, message=FALSE, 
-                      #cache=TRUE, 
                       results = 'asis')
 ```
 
@@ -44,14 +43,14 @@ caffsim::caffDatasetMulti(Weight = 20, Dose = 200, N = 20, Tau = 12)
 ```{r}
 library(caffsim)
 MyDataset <- caffDataset(Weight = 20, Dose = 200, N = 20)
-knitr::kable(head(MyDataset))
+knitr::kable(head(MyDataset), format = 'markdown')
 ```
 
 ### Create a dataset for concentration-time curve
 
 ```{r}
 MyConcTime <- caffConcTime(Weight = 20, Dose = 200, N = 20)
-knitr::kable(head(MyConcTime))
+knitr::kable(head(MyConcTime), format = 'markdown') 
 ```
 
 ### Create a concentration-time curve
@@ -87,14 +86,14 @@ plot_grid(MyPlotPub[[1]], MyPlotPub[[2]],
 
 ```{r}
 MyDatasetMulti <- caffDatasetMulti(Weight = 20, Dose = 200, N = 20, Tau = 12)
-knitr::kable(head(MyDatasetMulti))
+knitr::kable(head(MyDatasetMulti), format = 'markdown') 
 ```
 
 ### Create a dataset for concentration-time curve
 
 ```{r}
 MyConcTimeMulti <- caffConcTimeMulti(Weight = 20, Dose = 200, N = 20, Tau = 12, Repeat = 10)
-knitr::kable(head(MyConcTimeMulti))
+knitr::kable(head(MyConcTimeMulti), format = 'markdown')
 ```
 
 ### Create a concentration-time curve

diff --git a/README.md b/README.md
@@ -31,36 +31,38 @@ caffsim::caffDatasetMulti(Weight = 20, Dose = 200, N = 20, Tau = 12)
 ```r
 library(caffsim)
 MyDataset <- caffDataset(Weight = 20, Dose = 200, N = 20)
-knitr::kable(head(MyDataset))
+knitr::kable(head(MyDataset), format = 'markdown')
 ```
 
-      Tmax        Cmax         AUC   Half_life         CL          V          Ka          Ke
-----------  ----------  ----------  ----------  ---------  ---------  ----------  ----------
- 0.7776109   10.567459    60.69779    3.396494   3.295013   16.14934    4.045327   0.2040339
- 0.5247960    9.923271    55.00315    3.457693   3.636156   18.14244    6.960282   0.2004227
- 0.6431633   10.418663   110.02141    6.857586   1.817828   17.98833    6.598512   0.1010560
- 0.7039204   13.833981    75.87181    3.274701   2.636025   12.45627    4.579301   0.2116224
- 0.3819273   11.308010    63.10853    3.592874   3.169144   16.43050   10.710281   0.1928818
- 0.9321291   11.589101    65.22935    3.184408   3.066104   14.08907    3.049987   0.2176228
+
+
+|      Tmax|      Cmax|       AUC| Half_life|       CL|        V|        Ka|        Ke|
+|---------:|---------:|---------:|---------:|--------:|--------:|---------:|---------:|
+| 1.0906131| 11.314388| 121.76524|  6.657688| 1.642505| 15.77963|  3.262995| 0.1040902|
+| 0.5077390|  9.503155|  32.08079|  1.953896| 6.234261| 17.57734|  5.887948| 0.3546760|
+| 0.5619410| 12.913824| 107.44157|  5.361767| 1.861477| 14.40232|  7.310243| 0.1292484|
+| 0.8627242| 14.795723| 125.85073|  5.261418| 1.589184| 12.06546|  4.123528| 0.1317135|
+| 1.9623962| 13.828196| 138.83715|  5.411751| 1.440537| 11.24939|  1.314898| 0.1280547|
+| 0.3461002| 14.109070| 106.51535|  4.986041| 1.877664| 13.50954| 13.322522| 0.1389880|
 
 ### Create a dataset for concentration-time curve
 
 
 ```r
 MyConcTime <- caffConcTime(Weight = 20, Dose = 200, N = 20)
-knitr::kable(head(MyConcTime))
+knitr::kable(head(MyConcTime), format = 'markdown') 
 ```
 
 
 
- Subject   Time       Conc
---------  -----  ---------
-       1    0.0   0.000000
-       1    0.1   1.916637
-       1    0.2   3.503230
-       1    0.3   4.812908
-       1    0.4   5.890289
-       1    0.5   6.772843
+| Subject| Time|      Conc|
+|-------:|----:|---------:|
+|       1|  0.0|  0.000000|
+|       1|  0.1|  3.997178|
+|       1|  0.2|  6.949478|
+|       1|  0.3|  9.111235|
+|       1|  0.4| 10.675216|
+|       1|  0.5| 11.787516|
 
 ### Create a concentration-time curve
 
@@ -102,36 +104,38 @@ plot_grid(MyPlotPub[[1]], MyPlotPub[[2]],
 
 ```r
 MyDatasetMulti <- caffDatasetMulti(Weight = 20, Dose = 200, N = 20, Tau = 12)
-knitr::kable(head(MyDatasetMulti))
+knitr::kable(head(MyDatasetMulti), format = 'markdown') 
 ```
 
-     TmaxS       CmaxS        AUCS         AI       Aavss       Cavss     Cmaxss     Cminss
-----------  ----------  ----------  ---------  ----------  ----------  ---------  ---------
- 1.1182720    8.629289    63.93589   1.167687   102.84228    5.327991   12.07380   1.733873
- 0.7399023   18.149541   107.68076   1.107077    85.44083    8.973397   23.20571   2.244463
- 0.2484624   19.324724   105.66282   1.111206    86.70719    8.805235   22.52196   2.253929
- 1.0115241   15.295759   183.16914   1.499428   181.54300   15.264095   25.16186   8.380886
- 0.9198408   15.738922   137.56975   1.270960   129.13399   11.464146   22.51949   4.800999
- 3.4830363   10.609518   139.92981   1.352849   148.50802   11.660818   21.20090   5.529603
+
+
+|     TmaxS|     CmaxS|      AUCS|       AI|     Aavss|     Cavss|   Cmaxss|   Cminss|
+|---------:|---------:|---------:|--------:|---------:|---------:|--------:|--------:|
+| 0.5271146| 12.484516|  79.03187| 1.143311|  96.10779|  6.585989| 15.63696| 1.960048|
+| 1.8913324| 12.019455| 179.09764| 1.648569| 213.94066| 14.924803| 22.95346| 9.030201|
+| 0.6318965| 10.665360|  98.51506| 1.328002| 142.72210|  8.209588| 15.24596| 3.765590|
+| 3.1907127|  6.310865|  84.02889| 1.396045| 158.41622|  7.002408| 12.31609| 3.493959|
+| 0.2903834| 11.633120|  71.39127| 1.146897|  97.11712|  5.949272| 14.02226| 1.795997|
+| 1.1666484|  9.491114|  94.03967| 1.333555| 144.02132|  7.836639| 14.48238| 3.622403|
 
 ### Create a dataset for concentration-time curve
 
 
 ```r
 MyConcTimeMulti <- caffConcTimeMulti(Weight = 20, Dose = 200, N = 20, Tau = 12, Repeat = 10)
-knitr::kable(head(MyConcTimeMulti))
+knitr::kable(head(MyConcTimeMulti), format = 'markdown')
 ```
 
 
 
- Subject   Time       Conc
---------  -----  ---------
-       1    0.0   0.000000
-       1    0.2   5.077558
-       1    0.4   7.194572
-       1    0.6   7.995335
-       1    0.8   8.213161
-       1    1.0   8.175024
+| Subject| Time|     Conc|
+|-------:|----:|--------:|
+|       1|  0.0| 0.000000|
+|       1|  0.2| 6.107943|
+|       1|  0.4| 7.995832|
+|       1|  0.6| 8.477541|
+|       1|  0.8| 8.493149|
+|       1|  1.0| 8.356661|
 
 ### Create a concentration-time curve
 

diff --git a/assets/figures/MyPlotMultiMyConcTimeMulti-1.png b/assets/figures/MyPlotMultiMyConcTimeMulti-1.png
diff --git a/assets/figures/MyPlotMultiPub-1.png b/assets/figures/MyPlotMultiPub-1.png
diff --git a/assets/figures/MyPlotMyConcTime-1.png b/assets/figures/MyPlotMyConcTime-1.png
diff --git a/assets/figures/MyPlotPub-1.png b/assets/figures/MyPlotPub-1.png
diff --git a/docs/assets/figures/MyPlotMultiMyConcTimeMulti-1.png b/docs/assets/figures/MyPlotMultiMyConcTimeMulti-1.png
diff --git a/docs/assets/figures/MyPlotMultiPub-1.png b/docs/assets/figures/MyPlotMultiPub-1.png
diff --git a/docs/assets/figures/MyPlotMyConcTime-1.png b/docs/assets/figures/MyPlotMyConcTime-1.png
diff --git a/docs/assets/figures/MyPlotPub-1.png b/docs/assets/figures/MyPlotPub-1.png