diff --git a/sample_projects_intracellular/boolean/tutorial/scripts/Cell_cycle_boolean_analysis.ipynb b/sample_projects_intracellular/boolean/tutorial/scripts/Cell_cycle_boolean_analysis.ipynb
index 42868e978..0299b8903 100644
--- a/sample_projects_intracellular/boolean/tutorial/scripts/Cell_cycle_boolean_analysis.ipynb
+++ b/sample_projects_intracellular/boolean/tutorial/scripts/Cell_cycle_boolean_analysis.ipynb
@@ -18,11 +18,15 @@
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 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
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+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
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 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
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+=======
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 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
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 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
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    "outputs": [
@@ -1372,11 +1477,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
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+<<<<<<< HEAD
 =======
      "iopub.execute_input": "2024-05-28T12:48:00.677394Z",
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@@ -1384,6 +1493,8 @@
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 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
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    "outputs": [
@@ -1421,11 +1532,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
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 =======
      "iopub.execute_input": "2024-05-28T12:48:03.145205Z",
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@@ -1433,6 +1548,8 @@
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 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
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    "outputs": [
@@ -1470,11 +1587,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
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+<<<<<<< HEAD
 =======
      "iopub.execute_input": "2024-05-28T12:48:05.441414Z",
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@@ -1482,6 +1603,8 @@
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      "shell.execute_reply.started": "2024-05-28T12:48:05.441396Z"
 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
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    "outputs": [
@@ -1645,11 +1768,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
      "iopub.execute_input": "2024-06-07T17:39:24.873884Z",
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+<<<<<<< HEAD
 =======
      "iopub.execute_input": "2024-05-28T12:48:33.715086Z",
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@@ -1657,6 +1784,8 @@
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 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
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    "outputs": [
@@ -1693,11 +1822,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
      "iopub.execute_input": "2024-06-07T17:39:25.209915Z",
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+<<<<<<< HEAD
 =======
      "iopub.execute_input": "2024-05-28T12:48:33.989369Z",
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@@ -1705,6 +1838,8 @@
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      "shell.execute_reply.started": "2024-05-28T12:48:33.989328Z"
 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
    },
    "outputs": [
@@ -1741,11 +1876,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
      "iopub.execute_input": "2024-06-07T17:39:25.824641Z",
      "iopub.status.busy": "2024-06-07T17:39:25.824440Z",
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      "shell.execute_reply.started": "2024-06-07T17:39:25.824623Z"
+<<<<<<< HEAD
 =======
      "iopub.execute_input": "2024-05-28T12:48:34.421378Z",
      "iopub.status.busy": "2024-05-28T12:48:34.421177Z",
@@ -1753,6 +1892,8 @@
      "shell.execute_reply": "2024-05-28T12:48:37.169566Z",
      "shell.execute_reply.started": "2024-05-28T12:48:34.421361Z"
 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
    },
    "outputs": [
@@ -1916,11 +2057,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
      "iopub.execute_input": "2024-06-07T17:39:28.778069Z",
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      "shell.execute_reply.started": "2024-06-07T17:39:28.778041Z"
+<<<<<<< HEAD
 =======
      "iopub.execute_input": "2024-05-28T12:48:37.172842Z",
      "iopub.status.busy": "2024-05-28T12:48:37.172621Z",
@@ -1928,6 +2073,8 @@
      "shell.execute_reply": "2024-05-28T12:48:37.449509Z",
      "shell.execute_reply.started": "2024-05-28T12:48:37.172823Z"
 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
    },
    "outputs": [
@@ -1947,6 +2094,7 @@
    ]
   },
   {
+<<<<<<< HEAD
 <<<<<<< HEAD
    "cell_type": "markdown",
    "id": "76f230f8-a4c2-4303-9c0f-f6c624c3725c",
@@ -1962,6 +2110,14 @@
    "outputs": [],
    "source": []
 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+   "cell_type": "markdown",
+   "id": "76f230f8-a4c2-4303-9c0f-f6c624c3725c",
+   "metadata": {},
+   "source": [
+    "Here we can see that most trajectories goes back to the \\<nil\\>, and the cycle stops there. "
+   ]
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
   },
   {
    "cell_type": "markdown",
@@ -1978,11 +2134,15 @@
    "metadata": {
     "execution": {
 <<<<<<< HEAD
+<<<<<<< HEAD
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
      "iopub.execute_input": "2024-06-07T17:39:29.082671Z",
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      "shell.execute_reply.started": "2024-06-07T17:39:29.082653Z"
+<<<<<<< HEAD
 =======
      "iopub.execute_input": "2024-05-28T12:48:37.451127Z",
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@@ -1990,6 +2150,8 @@
      "shell.execute_reply": "2024-05-28T12:48:39.262626Z",
      "shell.execute_reply.started": "2024-05-28T12:48:37.451108Z"
 >>>>>>> a586442c (Added cycle analysis for sizek mutants)
+=======
+>>>>>>> 48c7af43 (Updated notebooks, preprint. Added references in the readme)
     }
    },
    "outputs": [