add spaces around [] and fix links

Author: cdarve245

documentation/quickguide/gui/data_manager/readme.md

@@ -2,8 +2,7 @@
 
 The <i> Data Manager </i> is used to view a <i>Project</i> as a hierarchy of <i>Tools</i> and <i>Data Nodes </i>
 representing the data created by <i>Tool</i> instances: images, paths, segmentations, models, meshes, and simulation jobs.
-Most of the <i>Tools</i> produce geometry that can be interactively viewed in the 2D and 3D views of the
-<a href="#display"> Display </a> area of the main window. The <i> Data Manager </i> provides an interface to interactively
+Most of the <i>Tools</i> produce geometry that can be interactively viewed in the 2D and 3D views of the Display area of the main window. The <i> Data Manager </i> provides an interface to interactively
 manage adding/removing <i>Tool</i> instances and changing some of the properties used to display the geometric data created by a
 <i>Tool</i> (e.g. color).
 

documentation/simcardio/electrophysiology/cep_activation_models/readme.md

@@ -1,6 +1,6 @@
 ## Cellular Activation Models
 
-Depending on how the depolarization and repolarization within a single cardiac myocyte is described, the electrophysiology models can be roughly divided into two categories: biophysics-based ionic models (such as the ten Tusscher-Panfilov (TTP) model<a href="#ref-2">[2]</a><a href="#ref-3">[3]</a>), and phenomenological models (such as the Aliev-Panfilov (AP), Fitzhugh-Nagumo (FN) models<a href="#ref-4">[4]</a>).
+Depending on how the depolarization and repolarization within a single cardiac myocyte is described, the electrophysiology models can be roughly divided into two categories: biophysics-based ionic models (such as the ten Tusscher-Panfilov (TTP) model <a href="#ref-2">[2]</a> <a href="#ref-3">[3]</a>), and phenomenological models (such as the Aliev-Panfilov (AP), Fitzhugh-Nagumo (FN) models <a href="#ref-4">[4]</a>).
 
 ### Biophysics-based Ionic Models
 
@@ -29,7 +29,7 @@ For the TTP model in <strong>svFSI</strong>, the following units have to be used
 
 <figure>
   <img class="svImg svImgMd" src="/documentation/simcardio/electrophysiology/images/Calcium.png">
-  <figcaption class="svCaption" >Structures involved in $Ca^{2+}$ cycling<a href="#ref-6">[6]</a>.</figcaption>
+  <figcaption class="svCaption" >Structures involved in $Ca^{2+}$ cycling <a href="#ref-6">[6]</a>.</figcaption>
 </figure>
 
 ### Phenomenological Models
@@ -83,19 +83,19 @@ The following table provides a summary of all the available electrophysiology mo
     </tr>
     </thead>
     <tr>
-      <td>Aliev-Panfilov model<a href="#ref-4">[4]</td>
+      <td>Aliev-Panfilov model <a href="#ref-4">[4]</td>
       <td>"ap", "aliev-panfilov"</td>
     </tr>
     <tr>
-      <td>Fitzhugh-Nagumo model<a href="#ref-4">[4]</a></td>
+      <td>Fitzhugh-Nagumo model <a href="#ref-4">[4]</a></td>
       <td>"fn", "fitzhugh-nagumo"</td>
     </tr>
     <tr>
-      <td>Bueno-Orovio-Cherry-Fenton model<a href="#ref-5">[5]</a></td>
+      <td>Bueno-Orovio-Cherry-Fenton model <a href="#ref-5">[5]</a></td>
       <td>"bo", "bueno-orovio"</td>
     </tr>
     <tr>
-      <td>tenTusscher-Panfilov model<a href="#ref-3">[3]</a></td>
+      <td>tenTusscher-Panfilov model <a href="#ref-3">[3]</a></td>
       <td>"ttp", "tentusscher-panfilov"</td>
     </tr>
   </table>

documentation/simcardio/electrophysiology/pnet_intro/readme.md

@@ -1,6 +1,6 @@
 ## Introduction
 
-The electrical activity in the heart tissue triggers muscle contraction and pumps blood into the systemic circulation. Under normal conditions, the electrical signal originates at the sinoatrial node located in the right atrium and reaches the atrioventricular node, which is the only electrical joint between the atria and the ventricles. <a href="#ref-7">[7]</a> The bundle of His connects the atrioventricular node to a fast conducting network of fibers, called the Purkinje network, located beneath the inner-most layer of the heart wall. Purkinje cells are larger than the cardiomyocytes and conduct the excitation wave faster than any other cell on the heart tissue. <a href="#ref-7">[7]]</a> The network not only synchronizes contraction between the left and the right ventricles but also allows the trajectory to follow a sequence beginning at the ventricular apex, spreading through the free-wall and eventually to the basal plane. Modeling the Purkinje network in cardiac electrophysiology simulations is therefore essential to achieve a realistic activation pattern and tissue contraction.
+The electrical activity in the heart tissue triggers muscle contraction and pumps blood into the systemic circulation. Under normal conditions, the electrical signal originates at the sinoatrial node located in the right atrium and reaches the atrioventricular node, which is the only electrical joint between the atria and the ventricles. <a href="#ref-7">[7]</a> The bundle of His connects the atrioventricular node to a fast conducting network of fibers, called the Purkinje network, located beneath the inner-most layer of the heart wall. Purkinje cells are larger than the cardiomyocytes and conduct the excitation wave faster than any other cell on the heart tissue. <a href="#ref-7">[7]</a> The network not only synchronizes contraction between the left and the right ventricles but also allows the trajectory to follow a sequence beginning at the ventricular apex, spreading through the free-wall and eventually to the basal plane. Modeling the Purkinje network in cardiac electrophysiology simulations is therefore essential to achieve a realistic activation pattern and tissue contraction.
 
 SimVascular provides a <strong>Purkinje plugin</strong> that can be used to generate Purkinje network on arbitrary patient-specific cardiac models. Our Purkinje plugin uses a fractal-tree-based method to generate the network <a href="#ref-8">[8]</a> and provides a simple interface to adjust the parameters that control the network density and coverage. The Purkinje mesh is then exported in vtu format compatible with <strong>SimVascular/svFSI</strong> for the ensuing electrophysiology simulations.
 

documentation/simcardio/mechanics/material_models/readme.md

@@ -15,11 +15,11 @@ Below is the list of available material constitutive models in **svFSI** :
     <td> "quad", "Quad", "quadratic", "Quadratic" </td>
   </tr>
   <tr>
-    <td>Simo-Taylor91 model<a href="#ref-5">[5]</a></td>
+    <td>Simo-Taylor91 model <a href="#ref-5">[5]</a></td>
     <td>"ST91", "Simo-Taylor91"</td>
   </tr>
   <tr>
-    <td>Miehe94 model<a href="#ref-6">[6]</a></td>
+    <td>Miehe94 model <a href="#ref-6">[6]</a></td>
     <td>"M94", "Miehe94"</td>
   </tr>
 </table>