update

examples/example_verdict.ipynb

@@ -12,12 +12,10 @@
    "metadata": {},
    "source": [
     "Panagiotaki et al. (2014) proposed a multi-compartment model called VERDICT to characterize the composition of tumorous tissues. VERDICT models the diffusion in tumor cells, the extra-cellular space and surrounding bloodvessels as a restricted Sphere, an isotropic Gaussian Ball and a Stick compartment, respectively. VERDICT's design is as follows:\n",
-    "\n",
     "\\begin{align}\n",
     " E_{\\textrm{VERDICT}}= \\underbrace{f_{\\textrm{Tumor}}\\overbrace{E(\\textrm{D}|\\lambda_{\\textrm{intra}})}^{\\textrm{Sphere}}}_{\\textrm{Tumor Cells}}\n",
     "                             + \\underbrace{f_{\\textrm{extra}}\\overbrace{E(\\cdot|\\lambda_{iso})}^{\\textrm{Ball}}}_{\\textrm{Hindered Extra-Cellular}}+\\underbrace{f_{blood}\\overbrace{E(\\lambda_\\parallel, \\boldsymbol{\\mu})}^{\\textrm{Stick}}}_{\\textrm{Vascular}}.\n",
     "\\end{align}\n",
-    "\n",
     "where $D$ is the sphere's diameter. VERDICT uses the Gaussian Phase approximation to model the sphere *(Balinov et al. 1993)*, which accounts to changes in gradient pulse duration $\\delta$ and separation $\\Delta$. Furthermore, some particular parameter constraints are imposed:\n",
     "- The intra-cellular (intra-spherical) diffusivity is fixed to 0.9e-9 m^2/s\n",
     "- The extra-cellular Gaussian diffusivity is also fixed to 0.9e-9 m^2/s\n",
@@ -61,7 +59,9 @@
   {
    "cell_type": "code",
    "execution_count": 2,
-   "metadata": {},
+   "metadata": {
+    "collapsed": true
+   },
    "outputs": [],
    "source": [
     "sphere = sphere_models.S4SphereGaussianPhaseApproximation(diffusion_constant=0.9e-9)\n",
@@ -114,7 +114,9 @@
   {
    "cell_type": "code",
    "execution_count": 4,
-   "metadata": {},
+   "metadata": {
+    "collapsed": true
+   },
    "outputs": [],
    "source": [
     "verdict_mod.set_fixed_parameter('G1Ball_1_lambda_iso', 0.9e-9)\n",