..

doc/example/example_visualization.ipynb

@@ -104,7 +104,7 @@
    "source": [
     "petab.visualize.plot_problem(\n",
     "    petab_problem,\n",
-    "    grouping_list=[[\"pEGFR_tot\"], [\"pAkt_tot\", \"pS6_tot\"]]\n",
+    "    grouping_list=[[\"pEGFR_tot\"], [\"pAkt_tot\", \"pS6_tot\"]],\n",
     "    group_by=\"observable\",\n",
     ")\n",
     "plt.gcf().set_size_inches(10, 4)"
@@ -199,7 +199,7 @@
    "source": [
     "### Plotting simulations\n",
     "\n",
-    "We can also plot simulations together with the meausurements, for example, to judge the model fit. For this, we need to provide a simulation file as `simulations_df`. A simulation file has the same format as the measurement file, but instead of the `measurement` column, it contains simulation outputs in the `simulation` column. The simulations are plotted as solid lines, while the measurements are plotted as dashed lines:"
+    "We can also plot simulations together with the measurements, for example, to judge the model fit. For this, we need to provide a simulation file as `simulations_df`. A simulation file has the same format as the measurement file, but instead of the `measurement` column, it contains simulation outputs in the `simulation` column. The simulations are plotted as solid lines, while the measurements are plotted as dashed lines:"
    ],
    "metadata": {
     "collapsed": false
@@ -471,7 +471,7 @@
    "source": [
     "### Plotting individual replicates\n",
     "\n",
-    "If the measurement file contains replicates, the replicates can also be visualized individually. Below you can see the same measurement data plotted as mean and standard deviations (left) and as replicates (right):"
+    "If the measurement file contains replicates, the replicates can also be visualized individually by setting the value for `plotTypeData` to `replicate`. Below, you can see the same measurement data plotted as mean and standard deviations (left) and as replicates (right):"
    ],
    "metadata": {
     "collapsed": false
@@ -501,7 +501,7 @@
    "source": [
     "### Scatter plots\n",
     "\n",
-    "If both measurements and simulated data are available, they can be visualized using scatter plot:"
+    "If both measurements and simulated data are available, they can be visualized as scatter plot by setting `plotTypeSimulation` to `ScatterPlot`:"
    ],
    "metadata": {
     "collapsed": false
@@ -531,7 +531,7 @@
    "source": [
     "### Further examples\n",
     "\n",
-    "Here are some further visualization examples, including barplots:"
+    "Here are some further visualization examples, including barplots (by setting `plotTypeSimulation` to `BarPlot`):"
    ],
    "metadata": {
     "collapsed": false