👌 Correction from reviewer

Thanks Ivo

Author: jsnel

docs/notebooks/kinetic_scheme_visualization.ipynb

@@ -219,17 +219,17 @@
    "id": "15",
    "metadata": {},
    "source": [
-    "## Real-world example: target analysis of carotenoid triads\n",
+    "## Real-world example: target analysis of chromophoric systems\n",
     "\n",
     "The examples above use simple simulated data. In practice, kinetic models are more complex.\n",
-    "Let's load a real target analysis model that describes the photophysics of three\n",
-    "carotenoid-porphyrin triads (RCG, GCRCG, RCGCR) measured in DCM.\n",
+    "Let's load a real target analysis model that describes the photophysics of chromophoric systems consisting of two or three\n",
+    "chromophores red (R), and green (G) connected via a bridge (C) (RCG, GCRCG, RCGCR) measured in the solvent DCM. These systems are detailed in the pyglotaran release paper.\n",
     "\n",
     "This model has:\n",
-    "- Three decay megacomplexes (one per triad measurement), each with multiple k-matrices\n",
+    "- Three decay megacomplexes (one per measurement), each with multiple k-matrices\n",
     "- Coherent artifact megacomplexes (automatically skipped)\n",
     "- CLP-guide megacomplexes (automatically skipped)\n",
-    "- Shared rate parameters across triads"
+    "- Shared rate parameters across the chromophoric systems"
    ]
   },
   {
@@ -254,9 +254,9 @@
    "id": "17",
    "metadata": {},
    "source": [
-    "### Single megacomplex: RCG triad\n",
+    "### Single megacomplex: RCG\n",
     "\n",
-    "Let's start by visualizing just the RCG triad's kinetic scheme. This megacomplex has 6\n",
+    "Let's start by visualizing just the RCG kinetic scheme. This megacomplex has 6\n",
     "compartments and 12 transitions (sequential R1→R2→R3→R4 cascade, branching to a green\n",
     "state G, and an additional S6 state)."
    ]
@@ -272,7 +272,7 @@
     "    \"complex_rcg_dcm\",\n",
     "    model,\n",
     "    params,\n",
-    "    title=\"RCG triad kinetic scheme\",\n",
+    "    title=\"RCG kinetic scheme\",\n",
     ")\n",
     "fig"
    ]
@@ -310,7 +310,7 @@
    "id": "21",
    "metadata": {},
    "source": [
-    "### Multiple megacomplexes: all three triads together\n",
+    "### Multiple megacomplexes: all three systems together\n",
     "\n",
     "You can pass a list of megacomplex labels to visualize multiple kinetic schemes in a single\n",
     "figure. Compartments that appear in multiple megacomplexes are automatically merged."
@@ -328,7 +328,7 @@
     "    model,\n",
     "    params,\n",
     "    figsize=(16, 10),\n",
-    "    title=\"All three triads\",\n",
+    "    title=\"All three systems\",\n",
     ")\n",
     "fig"
    ]