Added web refs to images

demo/HF_TCM+P3GPT_sceening.ipynb

@@ -13,7 +13,7 @@
     "\n",
     "In this notebook, we generate omics signatures in 8 human tissues. We will then use these signatures and an external catalog of TCM ingredients [BATMAN](http://bionet.ncpsb.org.cn/batman-tcm/#/browse) to select the compounds that target the genes in P3GPT-generated signatures.\n",
     "\n",
-    "<center><img src=\"./experiment_scheme.png\" width=\"800\" ></center>\n",
+    "<center><img src=\"https://huggingface.co/datasets/f-galkin/batman2/resolve/main/demo/imgs/experiment_scheme.png\" width=\"800\" ></center>\n",
     "<center><i>This notebook only focuses on TCM compounds with known targets, but you may modify the code to look for geroprotectors based on the information about predicted targets as well. In this case, the identified potential geroprptectors will be more numerous and might contain novel compounds.</i></center>\n"
    ]
   },
@@ -39,9 +39,9 @@
     "    │       ├─ endpoints.py\n",
     "    │       ├─ formula_picker.py\n",
     "    │       └─ precious3_gpt_multi_modal.py\n",
-    "    │\n",
-    "    ├── cpds_affecting_tissue_aging.svg\n",
-    "    ├── experiment_scheme.png\n",
+    "    ├── imgs\n",
+    "    │   ├── cpds_affecting_tissue_aging.svg\n",
+    "    │   └── experiment_scheme.png\n",
     "    ├── 1Aug2024_aging_signatures.pckl [optional]\n",
     "    └── P3GPT_compound_targets.pckl\n",
     "```"
@@ -676,7 +676,7 @@
     "A total of 14 compounds were detected as potential geroprotectors in 6+ tissues, while almost half of all detected ingredients affect agig only in one tissue.\n",
     "Among them, 8 were targetting the aging signatures in 8/8 tissues'. \n",
     "\n",
-    "<center><img src=\"./cpds_affecting_tissue_aging.svg\" width=\"600\" ></center>\n",
+    "<center><img src=\"https://huggingface.co/datasets/f-galkin/batman2/resolve/main/demo/imgs/cpds_affecting_tissue_aging.svg\" width=\"600\" ></center>\n",
     "\n",
     "> 💡 **Note:** The compounds we call \"potential geroprotectors\" may in fact accelerate aging. When we difined important aging genes, we did binned the up- and down-regulated genes together, although the directionality of change is extremely important in this setting. Additionally, the mechanism of action (agonist/antagonist) of a TCM ingredient needs to be taken into account. We can lean on the fact that most compounds in BATMAN are generally considered safe or even beneficial to the organism, but ultimately, the final list of TCM geroprotectors needs to be manually reviewed."
    ]