Update PCS_usecase.ipynb

BioDataFuse · Sep 18, 2024 · 11d41ef · 11d41ef
1 parent da23cd1
commit 11d41ef
Showing 1 changed file with 14 additions and 21 deletions.
diff --git a/examples/usecases/PCS/PCS_usecase.ipynb b/examples/usecases/PCS/PCS_usecase.ipynb
@@ -2884,46 +2884,39 @@
    "source": [
     "- Add `.graphml` file in **import** subfolder of the DBMS folder\n",
     "- Install apoc plugin\n",
-    "- Add `apoc.conf`  file to **conf** subfolder of the DBMS folder\n",
-    "\n",
-    "    `apoc.conf` file:\n",
+    "- Create `apoc.conf` file:\n",
     "    ```\n",
     "    apoc.trigger.enabled=true\n",
     "    apoc.import.file.enabled=true\n",
     "    apoc.export.file.enabled=true\n",
     "    apoc.import.file.use_neo4j_config=true\n",
     "    ```\n",
-    "\n",
+    "- Add `apoc.conf` file to **conf** subfolder of the DBMS folder\n",
     "- Open Neo4j Browser\n",
     "- (Optionl, only run if you have imported a graph  before) Remove all the nodes before importing `.graphml` file\n",
     "\n",
     "    ```\n",
-    "    ```MATCH (n) DETACH DELETE n\n",
+    "    MATCH (n) DETACH DELETE n\n",
     "    ```\n",
     "\n",
     "- Import `.graphml` file\n",
     "\n",
     "    ```\n",
-    "    ```call apoc.import.graphml('file:///pcs_networkx_graph.graphml',{readLabels:TRUE})\n",
+    "    call apoc.import.graphml('file:///pcs_networkx_graph.graphml',{readLabels:TRUE})\n",
     "    ```\n",
     "\n",
     "- Add indexes after importing the graph for improving the performance of queries\n",
     "\n",
-    "    ```create index Gene for (n:Gene) on (n.node_type)```\n",
-    "\n",
-    "    ```create index Pathway for (n:Pathway) on (n.node_type)```\n",
-    "\n",
-    "    ```create index `Biological Process` for (n:`Biological Process`) on (n.node_type)```\n",
-    "\n",
-    "    ```create index `Molecular Function` for (n:`Molecular Function`) on (n.node_type)```\n",
-    "\n",
-    "    ```create index `Cellular Component` for (n:`Cellular Component`) on (n.node_type)```\n",
-    "\n",
-    "    ```create index Disease for (n:Disease) on (n.node_type)```\n",
-    "\n",
-    "    ```create index Compound for (n:Compound) on (n.node_type)```\n",
-    "\n",
-    "    ```create index `Side Effect` for (n:`Side Effect`) on (n.node_type)```\n",
+    "    ```\n",
+    "    create index Gene for (n:Gene) on (n.node_type)\n",
+    "    create index Pathway for (n:Pathway) on (n.node_type)\n",
+    "    create index `Biological Process` for (n:`Biological Process`) on (n.node_type)\n",
+    "    create index `Molecular Function` for (n:`Molecular Function`) on (n.node_type)\n",
+    "    create index `Cellular Component` for (n:`Cellular Component`) on (n.node_type)\n",
+    "    create index Disease for (n:Disease) on (n.node_type)\n",
+    "    create index Compound for (n:Compound) on (n.node_type)\n",
+    "    create index `Side Effect` for (n:`Side Effect`) on (n.node_type)\n",
+    "    ```\n",
     "\n",
     "- Count the number of each node type\n",
     "    - total (```MATCH (n) RETURN count(n)```) = 19859\n",