diff --git a/src/anonymization/ner_anonymizer.py b/src/anonymization/ner_anonymizer.py
index ea42b27..0cf8793 100644
--- a/src/anonymization/ner_anonymizer.py
+++ b/src/anonymization/ner_anonymizer.py
@@ -22,8 +22,8 @@ def _get_pipeline() -> Pipeline:
         logger.info("Chargement du modèle NER %s...", NER_MODEL)
         from transformers import AutoModelForTokenClassification, AutoTokenizer, pipeline
 
-        tokenizer = AutoTokenizer.from_pretrained(NER_MODEL)
-        model = AutoModelForTokenClassification.from_pretrained(NER_MODEL)
+        tokenizer = AutoTokenizer.from_pretrained(NER_MODEL, local_files_only=True)
+        model = AutoModelForTokenClassification.from_pretrained(NER_MODEL, local_files_only=True)
         _pipeline = pipeline(
             "ner",
             model=model,
diff --git a/src/main.py b/src/main.py
index c1b3bb4..6c6bf0d 100644
--- a/src/main.py
+++ b/src/main.py
@@ -144,9 +144,9 @@ def main(input_path: str | None = None) -> None:
     )
     parser.add_argument(
         "input",
-        nargs="?",
-        default=input_path or "input/",
-        help="Chemin vers un PDF ou un dossier de PDFs (défaut: input/)",
+        nargs="*",
+        default=[input_path or "input/"],
+        help="Chemin(s) vers des PDFs, dossiers patients, ou le dossier racine (défaut: input/)",
     )
     parser.add_argument(
         "--no-ner",
@@ -209,28 +209,34 @@ def main(input_path: str | None = None) -> None:
     if args.no_rag:
         _use_rag = False
 
-    input_p = Path(args.input)
+    input_paths = args.input
 
     # Collecte des groupes (pdfs, subdir) à traiter
     groups: list[tuple[list[Path], str | None]] = []
 
-    if input_p.is_file():
-        groups.append(([input_p], None))
-    elif input_p.is_dir():
-        # PDFs à la racine
-        root_pdfs = sorted(input_p.glob("*.pdf"))
-        if root_pdfs:
-            groups.append((root_pdfs, None))
+    for p in input_paths:
+        input_p = Path(p)
+        if input_p.is_file():
+            # Fichier unique → subdir = nom du dossier parent (si ce n'est pas input/)
+            subdir = input_p.parent.name if input_p.parent.name != "input" else None
+            groups.append(([input_p], subdir))
+        elif input_p.is_dir():
+            # Vérifier s'il y a des PDFs directement dans ce dossier
+            root_pdfs = sorted(input_p.glob("*.pdf"))
+            # Vérifier s'il y a des sous-dossiers avec PDFs
+            sub_dirs = [c for c in sorted(input_p.iterdir()) if c.is_dir() and list(c.glob("*.pdf"))]
 
-        # Sous-dossiers directs (un seul niveau)
-        for child in sorted(input_p.iterdir()):
-            if child.is_dir():
-                sub_pdfs = sorted(child.glob("*.pdf"))
-                if sub_pdfs:
+            if sub_dirs:
+                # C'est un dossier racine (comme input/) → traiter chaque sous-dossier
+                for child in sub_dirs:
+                    sub_pdfs = sorted(child.glob("*.pdf"))
                     groups.append((sub_pdfs, child.name))
-    else:
-        logger.error("Chemin introuvable : %s", input_p)
-        sys.exit(1)
+            elif root_pdfs:
+                # C'est un dossier patient directement → utiliser son nom comme subdir
+                groups.append((root_pdfs, input_p.name))
+        else:
+            logger.error("Chemin introuvable : %s", input_p)
+            sys.exit(1)
 
     total = sum(len(pdfs) for pdfs, _ in groups)
     if total == 0:
diff --git a/src/viewer/app.py b/src/viewer/app.py
index 90660dd..270dbfc 100644
--- a/src/viewer/app.py
+++ b/src/viewer/app.py
@@ -4,6 +4,7 @@ from __future__ import annotations
 
 import json
 import logging
+import re
 from pathlib import Path
 
 import requests
@@ -185,6 +186,30 @@ def severity_badge(value: str | None) -> Markup:
     )
 
 
+def format_dossier_name(name: str) -> str:
+    """Transforme un nom de dossier en nom lisible (ex: 15_23096332 → Dossier 23096332)."""
+    if name == "racine":
+        return "Non classés"
+    m = re.match(r"^\d+_(\d+)$", name)
+    if m:
+        return f"Dossier {m.group(1)}"
+    return name
+
+
+def format_doc_name(name: str) -> str:
+    """Transforme un nom de fichier JSON en nom lisible."""
+    n = name.lower()
+    if "fusionne" in n:
+        return "Fusionné"
+    if n.startswith("cro") or n.startswith("crh"):
+        return name.split("_")[0].upper()
+    if "trackare" in n:
+        return "Trackare"
+    if "anapath" in n:
+        return "Anapath"
+    return name
+
+
 # ---------------------------------------------------------------------------
 # App factory
 # ---------------------------------------------------------------------------
@@ -196,6 +221,8 @@ def create_app() -> Flask:
     app.jinja_env.filters["confidence_label"] = confidence_label
     app.jinja_env.filters["severity_badge"] = severity_badge
     app.jinja_env.filters["format_duration"] = format_duration
+    app.jinja_env.filters["format_dossier_name"] = format_dossier_name
+    app.jinja_env.filters["format_doc_name"] = format_doc_name
 
     ccam_dict = load_ccam_dict()
 
diff --git a/src/viewer/templates/base.html b/src/viewer/templates/base.html
index a79a52b..855ae8f 100644
--- a/src/viewer/templates/base.html
+++ b/src/viewer/templates/base.html
@@ -72,6 +72,10 @@
     background: #1e293b;
     border-left-color: #3b82f6;
   }
+  .sidebar-nav a.sidebar-fusionne {
+    color: #60a5fa;
+    font-weight: 600;
+  }
 
   /* Admin section */
   .sidebar-admin {
diff --git a/src/viewer/templates/index.html b/src/viewer/templates/index.html
index 0c951f7..16c1364 100644
--- a/src/viewer/templates/index.html
+++ b/src/viewer/templates/index.html
@@ -3,9 +3,13 @@
 
 {% block sidebar %}
 {% for group_name, items in groups.items() %}
-  <div class="group-title">{{ group_name }}</div>
+  <div class="group-title">{{ group_name | format_dossier_name }}</div>
   {% for item in items %}
-    <a href="/dossier/{{ item.path_rel }}">{{ item.name }}</a>
+    {% if 'fusionne' in item.name %}
+      <a href="/dossier/{{ item.path_rel }}" class="sidebar-fusionne">&#9733; Fusionné</a>
+    {% else %}
+      <a href="/dossier/{{ item.path_rel }}">{{ item.name | format_doc_name }}</a>
+    {% endif %}
   {% endfor %}
 {% endfor %}
 {% endblock %}
@@ -33,7 +37,7 @@
   {% endfor %}
   {% set stats = group_stats.get(group_name, {}) %}
   <h3 style="display:flex;align-items:baseline;gap:0.75rem;flex-wrap:wrap;">
-    {{ group_name }}
+    {{ group_name | format_dossier_name }}
     <span style="font-size:0.75rem;font-weight:400;color:#64748b;">
       {{ items|length }} fichier(s){% if ns.count %} — total : {{ ns.total|format_duration }}{% endif %}
     </span>
@@ -60,7 +64,7 @@
     <a href="/dossier/{{ item.path_rel }}" style="text-decoration:none;color:inherit;">
       <div class="card" style="cursor:pointer;transition:box-shadow 0.15s;">
         <div style="font-weight:600;font-size:0.9rem;margin-bottom:0.4rem;color:#0f172a;">
-          {{ item.name }}
+          {{ item.name | format_doc_name }}
         </div>
         <div style="display:flex;flex-wrap:wrap;gap:0.3rem;margin-bottom:0.4rem;">
           {% if item.dossier.document_type %}