Fix dataset structure: remove spaces and parentheses from directory names

README.md

@@ -3,37 +3,39 @@ configs:
 - config_name: clinical
   data_files:
   - split: gatortron
-    path: Clinical Data (gatortron-base)/*
+    path: clinical_gatortron/*
   - split: medgemma
-    path: Clinical Data (medgemma)/*
+    path: clinical_medgemma/*
   - split: qwen
-    path: Clinical Data (qwen)/*
+    path: clinical_qwen/*
   - split: llama
-    path: Clinical Data (llama)/*
+    path: clinical_llama/*
+  - split: biobert
+    path: clinical_biobert/*
 - config_name: pathology_report
   data_files:
   - split: gatortron
-    path: Pathology Report (gatortron-base)/*
+    path: pathology_gatortron/*
   - split: medgemma
-    path: Pathology Report (medgemma)/*
+    path: pathology_medgemma/*
   - split: qwen
-    path: Pathology Report (qwen)/*
+    path: pathology_qwen/*
   - split: llama
-    path: Pathology Report (llama)/*
+    path: pathology_llama/*
 - config_name: wsi
   data_files:
   - split: uni
-    path: Slide Image (UNI)/*
+    path: wsi_uni/*
 - config_name: molecular
   data_files:
   - split: senmo
-    path: Molecular (SeNMo)/*
+    path: molecular_senmo/*
 - config_name: radiology
   data_files:
   - split: remedis
-    path: Radiology (REMEDIS)/*
+    path: radiology_remedis/*
   - split: radimagenet
-    path: Radiology (RadImageNet)/*
+    path: radiology_radimagenet/*
 language:
 - en
 tags:
@@ -61,11 +63,12 @@ This dataset aims to facilitate research in multimodal machine learning for onco
 ```python
 from datasets import load_dataset
 
-# Clinical data embeddings (4 models available)
+# Clinical data embeddings (5 models available)
 clinical_gatortron = load_dataset("Lab-Rasool/TCGA", "clinical", split="gatortron")
 clinical_medgemma = load_dataset("Lab-Rasool/TCGA", "clinical", split="medgemma")
 clinical_qwen = load_dataset("Lab-Rasool/TCGA", "clinical", split="qwen")
 clinical_llama = load_dataset("Lab-Rasool/TCGA", "clinical", split="llama")
+clinical_biobert = load_dataset("Lab-Rasool/TCGA", "clinical", split="biobert")
 
 # Pathology report embeddings (4 models available)
 pathology_gatortron = load_dataset("Lab-Rasool/TCGA", "pathology_report", split="gatortron")
@@ -136,6 +139,7 @@ if __name__ == "__main__":
   - MedGemma: 2560
   - Qwen: 1024
   - Llama: 2304
+  - BioBERT: 768
 
 ### Pathology Reports
 - **10,857 patient records** per model
@@ -185,4 +189,4 @@ The source data for this dataset was originally collected and maintained by The
 - HoneyBee codebase: https://github.com/lab-rasool/HoneyBee/
 
 ## Contact Information
-For any questions or issues, please contact the dataset curators at [aakash.tripathi@moffitt.org].
+For any questions or issues, please contact the dataset curators at [aakash.tripathi@moffitt.org].