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  1. app.py +76 -711
app.py CHANGED
@@ -1,8 +1,5 @@
1
  """
2
- Medical Image AI Lab - Complete Educational Platform with Tier 1 Features
3
- - Example Gallery
4
- - Save & Share Results
5
- - Performance Benchmarking
6
  """
7
  import gradio as gr
8
  import torch
@@ -14,8 +11,6 @@ import seaborn as sns
14
  from io import BytesIO
15
  import json
16
  import os
17
- from datetime import datetime
18
- from pathlib import Path
19
 
20
  CLASSES = ['akiec', 'bcc', 'bkl', 'df', 'mel', 'nv', 'vasc']
21
  CLASS_NAMES = {
@@ -34,19 +29,13 @@ CLASS_DISTRIBUTION = {
34
  }
35
 
36
  VIT_METRICS = {
37
- 'accuracy': 0.4897, 'f1_macro': 0.3226, 'f1_weighted': 0.5529,
38
- 'per_class_f1': {
39
- 'nv': 0.65, 'mel': 0.42, 'bkl': 0.38,
40
- 'bcc': 0.35, 'akiec': 0.28, 'vasc': 0.20, 'df': 0.15
41
- }
42
  }
43
 
44
  BIOMEDCLIP_METRICS = {
45
- 'accuracy': 0.5116, 'f1_macro': 0.3521, 'f1_weighted': 0.5626,
46
- 'per_class_f1': {
47
- 'nv': 0.68, 'mel': 0.45, 'bkl': 0.40,
48
- 'bcc': 0.38, 'akiec': 0.30, 'vasc': 0.22, 'df': 0.18
49
- }
50
  }
51
 
52
  CONFUSION_MATRIX = np.array([
@@ -69,7 +58,6 @@ vit_model = vit_model.to(device).eval()
69
  biomedclip_model = biomedclip_model.to(device).eval()
70
  print("Models loaded!")
71
 
72
- # Load example images metadata
73
  try:
74
  with open('example_images.json', 'r') as f:
75
  EXAMPLE_METADATA = json.load(f)
@@ -154,94 +142,27 @@ def predict_with_model(image, model):
154
  top_idx = int(np.argmax(probs))
155
  top_prob = float(probs[top_idx])
156
  top_class = CLASS_NAMES[CLASSES[top_idx]]
157
-
158
  entropy = -sum(p * np.log(p + 1e-10) for p in probs if p > 0.01)
159
  normalized_entropy = entropy / np.log(7)
160
 
161
  return results, top_class, top_prob, normalized_entropy, probs
162
 
163
- def generate_pdf_report(image, vit_results, bio_results, comparison, insights):
164
- """Generate a downloadable PDF report"""
165
- from matplotlib.backends.backend_pdf import PdfPages
166
-
167
- pdf_buffer = BytesIO()
168
-
169
- with PdfPages(pdf_buffer) as pdf:
170
- # Page 1: Title and Image
171
- fig = plt.figure(figsize=(8.5, 11))
172
- fig.text(0.5, 0.95, 'Medical Image AI Lab - Analysis Report',
173
- ha='center', fontsize=16, weight='bold')
174
- fig.text(0.5, 0.92, f'Generated: {datetime.now().strftime("%Y-%m-%d %H:%M")}',
175
- ha='center', fontsize=10)
176
-
177
- ax = fig.add_subplot(211)
178
- ax.imshow(image)
179
- ax.axis('off')
180
- ax.set_title('Analyzed Image', fontsize=12, pad=10)
181
-
182
- # Add predictions
183
- ax_text = fig.add_subplot(212)
184
- ax_text.axis('off')
185
-
186
- report_text = "MODEL PREDICTIONS\n\n"
187
- report_text += "ViT Model:\n"
188
- for k, v in list(vit_results.items())[:3]:
189
- report_text += f" {k}: {v*100:.1f}%\n"
190
- report_text += "\nBiomedCLIP Model:\n"
191
- for k, v in list(bio_results.items())[:3]:
192
- report_text += f" {k}: {v*100:.1f}%\n"
193
-
194
- ax_text.text(0.1, 0.9, report_text, fontsize=10, verticalalignment='top',
195
- family='monospace')
196
-
197
- pdf.savefig(fig, bbox_inches='tight')
198
- plt.close()
199
-
200
- pdf_buffer.seek(0)
201
- return pdf_buffer.getvalue()
202
-
203
  def analyze_image(image):
204
  if image is None:
205
- return {}, {}, "", "", None, None, None, None
206
 
207
  vit_results, vit_top, vit_conf, vit_ent, vit_probs = predict_with_model(image, vit_model)
208
  bio_results, bio_top, bio_conf, bio_ent, bio_probs = predict_with_model(image, biomedclip_model)
209
 
210
- agreement = "✅ Models Agree" if vit_top == bio_top else "⚠️ Models Disagree"
211
-
212
- comparison = f"""
213
- ### 🔄 Model Comparison Analysis
214
-
215
- **{agreement}**
216
-
217
- | Metric | ViT Model | BiomedCLIP Model |
218
- |--------|-----------|------------------|
219
- | Top Prediction | {vit_top} | {bio_top} |
220
- | Confidence | {vit_conf*100:.1f}% | {bio_conf*100:.1f}% |
221
- | Uncertainty | {vit_ent:.1%} | {bio_ent:.1%} |
222
-
223
- **Educational Insight:**
224
- """
225
 
226
- if vit_top == bio_top:
227
- comparison += f"\n- Both models predict **{vit_top}**\n"
228
- comparison += f"- Agreement suggests strong visual features\n"
229
- else:
230
- comparison += f"\n- **Disagreement reveals ambiguity!**\n"
231
- comparison += f"- ViT: {vit_top}, BiomedCLIP: {bio_top}\n"
232
 
233
- insights = f"""
234
- ### 📊 Deep Learning Analysis
235
-
236
- **Prediction Entropy:**
237
- - ViT: {vit_ent:.3f} (uncertainty: {vit_ent:.1%})
238
- - BiomedCLIP: {bio_ent:.3f} (uncertainty: {bio_ent:.1%})
239
-
240
- **Class Probabilities:**
241
-
242
- | Class | ViT | BiomedCLIP | Diff |
243
- |-------|-----|------------|------|
244
- """
245
  for i, cls in enumerate(CLASSES):
246
  diff = abs(vit_probs[i] - bio_probs[i])
247
  insights += f"| {CLASS_NAMES[cls]} | {vit_probs[i]*100:.1f}% | {bio_probs[i]*100:.1f}% | {diff*100:.1f}% |\n"
@@ -250,29 +171,19 @@ def analyze_image(image):
250
  distribution_plot = create_data_distribution_plot()
251
  performance_plot = create_performance_comparison()
252
 
253
- # Generate PDF
254
- pdf_data = generate_pdf_report(image, vit_results, bio_results, comparison, insights)
255
-
256
  return (vit_results, bio_results, comparison, insights,
257
- confusion_plot, distribution_plot, performance_plot, pdf_data)
258
 
259
- # Create interface
260
  with gr.Blocks(title="Medical Image AI Lab", theme="soft") as demo:
261
- gr.Markdown("""
262
- # 🔬 Medical Image AI Lab - Educational Platform
263
- ### Learn Computer Vision Through Real Medical AI Analysis
264
-
265
- **For ML/AI Students, Researchers, and Educators**
266
- """)
267
 
268
  with gr.Tabs():
269
- with gr.Tab("🔍 Analyze Image"):
270
  with gr.Row():
271
- with gr.Column(scale=1):
272
- image_input = gr.Image(type="pil", label="📸 Upload Dermoscopy Image")
273
- analyze_btn = gr.Button("🔍 Analyze", variant="primary", size="lg")
274
-
275
- with gr.Column(scale=1):
276
  with gr.Tabs():
277
  with gr.Tab("Predictions"):
278
  vit_output = gr.Label(num_top_classes=7, label="ViT")
@@ -281,631 +192,86 @@ with gr.Blocks(title="Medical Image AI Lab", theme="soft") as demo:
281
  comparison_output = gr.Markdown()
282
  with gr.Tab("Analysis"):
283
  insights_output = gr.Markdown()
284
- with gr.Tab("Performance"):
285
  confusion_output = gr.Image(label="Confusion Matrix")
286
  distribution_output = gr.Image(label="Data Distribution")
287
- performance_output = gr.Image(label="Per-Class Performance")
288
-
289
- with gr.Row():
290
- pdf_output = gr.File(label="📄 Download PDF Report")
291
 
292
  with gr.Tab("📸 Example Gallery"):
293
- gr.Markdown("""
294
- ## Example Cases from Test Set
295
-
296
- These real examples show different model behaviors:
297
- """)
298
 
299
  with gr.Tabs():
300
- with gr.Tab("✅ High Confidence Correct"):
301
- gr.Markdown("""
302
- **Both models agree and are correct** - These show clear visual features
303
- that the models learned to recognize reliably.
304
-
305
- **Learning Point:** When models agree with high confidence, they've likely
306
- learned robust features. But this doesn't guarantee correctness!
307
- """)
308
-
309
- gallery_correct = []
310
  if 'high_conf_correct' in EXAMPLE_METADATA:
311
  for ex in EXAMPLE_METADATA['high_conf_correct']:
312
  img_path = f"gallery_examples/{ex['image']}"
313
  if os.path.exists(img_path):
314
- gallery_correct.append((img_path,
315
- f"True: {CLASS_NAMES[ex['true_label']]}\n" +
316
- f"ViT: {CLASS_NAMES[ex['vit_pred']]} ({ex['vit_conf']*100:.0f}%)\n" +
317
- f"Bio: {CLASS_NAMES[ex['bio_pred']]} ({ex['bio_conf']*100:.0f}%)"))
318
-
319
- if gallery_correct:
320
- gr.Gallery(value=gallery_correct, columns=3, height=400)
321
 
322
- with gr.Tab("❌ High Confidence Wrong"):
323
- gr.Markdown("""
324
- **Both models agree but are WRONG** - Classic overconfidence!
325
-
326
- **Learning Point:** High confidence ≠ correctness. These cases reveal:
327
- - Visual similarity between classes
328
- - Systematic biases in training data
329
- - Why calibration matters in ML
330
- """)
331
-
332
- gallery_wrong = []
333
  if 'high_conf_wrong' in EXAMPLE_METADATA:
334
  for ex in EXAMPLE_METADATA['high_conf_wrong']:
335
  img_path = f"gallery_examples/{ex['image']}"
336
  if os.path.exists(img_path):
337
- gallery_wrong.append((img_path,
338
- f"TRUE: {CLASS_NAMES[ex['true_label']]}\n" +
339
- f"ViT predicted: {CLASS_NAMES[ex['vit_pred']]} ({ex['vit_conf']*100:.0f}%)\n" +
340
- f"Bio predicted: {CLASS_NAMES[ex['bio_pred']]} ({ex['bio_conf']*100:.0f}%)"))
341
-
342
- if gallery_wrong:
343
- gr.Gallery(value=gallery_wrong, columns=3, height=400)
344
 
345
- with gr.Tab("🤔 Models Disagree"):
346
- gr.Markdown("""
347
- **Models predict different classes** - Reveals ambiguity!
348
-
349
- **Learning Point:** Disagreement shows:
350
- - Overlapping features between classes
351
- - Different learned representations
352
- - Why ensemble methods can help
353
- - Cases that need human expert review
354
- """)
355
-
356
- gallery_disagree = []
357
  if 'models_disagree' in EXAMPLE_METADATA:
358
  for ex in EXAMPLE_METADATA['models_disagree']:
359
  img_path = f"gallery_examples/{ex['image']}"
360
  if os.path.exists(img_path):
361
- gallery_disagree.append((img_path,
362
- f"True: {CLASS_NAMES[ex['true_label']]}\n" +
363
- f"⚔️ ViT: {CLASS_NAMES[ex['vit_pred']]} ({ex['vit_conf']*100:.0f}%)\n" +
364
- f"⚔️ Bio: {CLASS_NAMES[ex['bio_pred']]} ({ex['bio_conf']*100:.0f}%)"))
365
-
366
- if gallery_disagree:
367
- gr.Gallery(value=gallery_disagree, columns=3, height=400)
368
-
369
- with gr.Tab("🎯 Low Confidence Correct"):
370
- gr.Markdown("""
371
- **Models are uncertain but still correct** - Lucky or learned?
372
-
373
- **Learning Point:** Low confidence can mean:
374
- - Ambiguous visual features
375
- - Underrepresented class in training
376
- - Model hasn't learned robust decision boundary
377
- - Or the model is properly uncertain!
378
- """)
379
-
380
- gallery_lowconf = []
381
- if 'low_conf_correct' in EXAMPLE_METADATA:
382
- for ex in EXAMPLE_METADATA['low_conf_correct']:
383
- img_path = f"gallery_examples/{ex['image']}"
384
- if os.path.exists(img_path):
385
- gallery_lowconf.append((img_path,
386
- f"✅ True: {CLASS_NAMES[ex['true_label']]}\n" +
387
- f"ViT: {CLASS_NAMES[ex['vit_pred']]} ({ex['vit_conf']*100:.0f}%)\n" +
388
- f"Bio: {CLASS_NAMES[ex['bio_pred']]} ({ex['bio_conf']*100:.0f}%)"))
389
-
390
- if gallery_lowconf:
391
- gr.Gallery(value=gallery_lowconf, columns=3, height=400)
392
 
393
- with gr.Tab("📊 Performance Benchmarking"):
394
  gr.Markdown("""
395
- ## How Do These Models Compare?
396
-
397
- ### Our Models vs Published Research
398
-
399
- | Model | Accuracy | Year | Context |
400
- |-------|----------|------|---------|
401
- | **Random Guessing** | **14.3%** | - | 1 in 7 classes |
402
- | **Majority Class Baseline** | **67%** | - | Always predict "nevi" (most common) |
403
- | **Your ViT Model** | **48.97%** | 2024 | Educational demo, standard training |
404
- | **Your BiomedCLIP** | **51.16%** | 2024 | Medical-specialized, 30 epochs |
405
- | **HAM10000 Paper Baseline** | **76.5%** | 2018 | Tschandl et al., research team [[1]](https://arxiv.org/abs/1803.10417) |
406
- | **ResNet Ensemble** | **85.1%** | 2019 | Multiple models + extensive tuning [[2]](https://www.nature.com/articles/s41591-018-0316-z) |
407
- | **Current SOTA** | **89.2%** | 2023 | Vision transformers + expert labels [[3]](https://arxiv.org/abs/2203.01433) |
408
- | **General Practitioners** | **60-70%** | Various | Without dermoscopy training [[4]](https://pubmed.ncbi.nlm.nih.gov/29234426/) |
409
- | **Dermatologists** | **75-85%** | Various | With dermoscopy, no patient history [[5]](https://jamanetwork.com/journals/jamadermatology/fullarticle/2688587) |
410
- | **Expert + Biopsy** | **95%+** | - | Gold standard for melanoma detection |
411
-
412
- ### 🎓 Educational Context
413
-
414
- **Why Your 51% is Actually Good for Learning:**
415
-
416
- 1. **3.6x Better Than Random** (14.3% → 51.16%)
417
- - Shows the model IS learning meaningful patterns
418
- - Represents 73% of maximum possible improvement over random
419
-
420
- 2. **Better Than Majority Baseline in Multi-Class**
421
- - Doesn't just predict the most common class
422
- - Learned to distinguish between 7 different lesion types
423
-
424
- 3. **Reveals Real-World Challenges**
425
- - Gap to 89% SOTA shows the difficulty
426
- - Teaches what separates demo from deployment
427
- - Highlights importance of data quality, ensemble methods, expert labeling
428
-
429
- 4. **Comparable to GPs Without Training**
430
- - Your model performs similarly to non-specialist doctors
431
- - Shows AI can learn basic pattern recognition
432
- - But clinical deployment needs >>95% accuracy
433
-
434
- ### 📚 What It Takes to Reach 85%+
435
-
436
- Research teams achieving high accuracy typically have:
437
- - **Team**: 5-10 researchers + dermatology experts
438
- - **Time**: 6-12 months of development
439
- - **Compute**: $10K-50K in GPU costs
440
- - **Methods**: Ensemble models, extensive augmentation, expert validation
441
- - **Data**: Additional labeled data beyond HAM10000
442
-
443
- ### 🔬 Key Takeaways
444
-
445
- - Medical AI is HARD - even 89% isn't sufficient for solo deployment
446
- - Your 51% demonstrates core ML concepts effectively
447
- - The journey from 51% → 95% teaches real ML engineering
448
- - Class imbalance (67% nevi) remains dominant challenge
449
- - Human experts + AI together perform best
450
-
451
- ### 📖 References
452
-
453
- 1. Tschandl, P., et al. (2018). "The HAM10000 dataset" - Original paper
454
- 2. Esteva, A., et al. (2019). "Dermatologist-level classification" - Nature Medicine
455
- 3. Recent advances in vision transformers for medical imaging (2023)
456
- 4. GP diagnostic accuracy studies
457
- 5. Dermatologist performance benchmarks
458
-
459
- ---
460
-
461
- **Use this context when teaching:**
462
- - Show students the reality of model development
463
- - Discuss why medical AI needs such high standards
464
- - Explore how to systematically improve from 51% → 95%
465
- - Understand that 51% teaches more than 95% would!
466
  """)
467
 
468
- gr.Markdown("""
469
- ---
470
-
471
- ## ⚠️ Educational Use Only
472
-
473
- This platform is for ML education, NOT medical diagnosis.
474
- Always consult a dermatologist for actual medical concerns.
475
-
476
- **Built for ML Education | Models: ViT (48.97%) & BiomedCLIP (51.16%)**
477
- """)
478
-
479
- # Connect interface
480
- analyze_btn.click(
481
- fn=analyze_image,
482
- inputs=image_input,
483
- outputs=[vit_output, bio_output, comparison_output, insights_output,
484
- confusion_output, distribution_output, performance_output, pdf_output]
485
- )
486
-
487
- if __name__ == "__main__":
488
- demo.launch()import gradio as gr
489
- import torch
490
- from PIL import Image
491
- from transformers import ViTImageProcessor, ViTForImageClassification
492
- import numpy as np
493
- import matplotlib.pyplot as plt
494
- import seaborn as sns
495
- from io import BytesIO
496
-
497
- CLASSES = ['akiec', 'bcc', 'bkl', 'df', 'mel', 'nv', 'vasc']
498
- CLASS_NAMES = {
499
- 'akiec': 'Actinic keratoses',
500
- 'bcc': 'Basal cell carcinoma',
501
- 'bkl': 'Benign keratosis-like lesions',
502
- 'df': 'Dermatofibroma',
503
- 'mel': 'Melanoma',
504
- 'nv': 'Melanocytic nevi',
505
- 'vasc': 'Vascular lesions'
506
- }
507
-
508
- # Training data distribution (from HAM10000)
509
- CLASS_DISTRIBUTION = {
510
- 'nv': 6705, # 67% - Highly overrepresented
511
- 'mel': 1113, # 11%
512
- 'bkl': 1099, # 11%
513
- 'bcc': 514, # 5%
514
- 'akiec': 327, # 3%
515
- 'vasc': 142, # 1.4%
516
- 'df': 115 # 1.1% - Highly underrepresented
517
- }
518
-
519
- # Model performance metrics (from your test results)
520
- VIT_METRICS = {
521
- 'accuracy': 0.4897,
522
- 'f1_macro': 0.3226,
523
- 'f1_weighted': 0.5529,
524
- 'per_class_f1': {
525
- 'nv': 0.65, 'mel': 0.42, 'bkl': 0.38,
526
- 'bcc': 0.35, 'akiec': 0.28, 'vasc': 0.20, 'df': 0.15
527
- }
528
- }
529
-
530
- BIOMEDCLIP_METRICS = {
531
- 'accuracy': 0.5116,
532
- 'f1_macro': 0.3521,
533
- 'f1_weighted': 0.5626,
534
- 'per_class_f1': {
535
- 'nv': 0.68, 'mel': 0.45, 'bkl': 0.40,
536
- 'bcc': 0.38, 'akiec': 0.30, 'vasc': 0.22, 'df': 0.18
537
- }
538
- }
539
-
540
- # Confusion matrix data (simplified - you can add real data later)
541
- CONFUSION_MATRIX = np.array([
542
- [45, 8, 12, 2, 5, 25, 3], # akiec
543
- [6, 180, 15, 8, 12, 8, 5], # bcc
544
- [10, 12, 420, 5, 8, 35, 2], # bkl
545
- [3, 5, 8, 90, 2, 6, 1], # df
546
- [8, 15, 10, 3, 470, 45, 2], # mel
547
- [15, 6, 28, 4, 35, 4450, 8],# nv
548
- [2, 3, 5, 1, 2, 8, 120] # vasc
549
- ])
550
-
551
- device = torch.device('cuda' if torch.cuda.is_available() else 'cpu')
552
- processor = ViTImageProcessor.from_pretrained('google/vit-base-patch16-224')
553
-
554
- print("Loading models...")
555
- vit_model = ViTForImageClassification.from_pretrained('best_model', local_files_only=True)
556
- biomedclip_model = ViTForImageClassification.from_pretrained('best_model_biomedclip_maximal', local_files_only=True)
557
-
558
- vit_model = vit_model.to(device).eval()
559
- biomedclip_model = biomedclip_model.to(device).eval()
560
- print("Models loaded!")
561
-
562
- def create_confusion_matrix_plot():
563
- """Generate confusion matrix visualization"""
564
- plt.figure(figsize=(10, 8))
565
- sns.heatmap(CONFUSION_MATRIX, annot=True, fmt='d', cmap='Blues',
566
- xticklabels=[CLASS_NAMES[c] for c in CLASSES],
567
- yticklabels=[CLASS_NAMES[c] for c in CLASSES])
568
- plt.title('Model Confusion Matrix\nShows which classes get misclassified as what', fontsize=14, pad=20)
569
- plt.ylabel('True Label', fontsize=12)
570
- plt.xlabel('Predicted Label', fontsize=12)
571
- plt.xticks(rotation=45, ha='right')
572
- plt.yticks(rotation=0)
573
- plt.tight_layout()
574
-
575
- buf = BytesIO()
576
- plt.savefig(buf, format='png', dpi=100, bbox_inches='tight')
577
- plt.close()
578
- buf.seek(0)
579
- return Image.open(buf)
580
-
581
- def create_data_distribution_plot():
582
- """Visualize training data class imbalance"""
583
- fig, (ax1, ax2) = plt.subplots(1, 2, figsize=(14, 5))
584
-
585
- # Bar chart
586
- classes_display = [CLASS_NAMES[c] for c in CLASSES]
587
- counts = [CLASS_DISTRIBUTION[c] for c in CLASSES]
588
- colors = ['#e74c3c' if c < 500 else '#3498db' for c in counts]
589
-
590
- ax1.barh(classes_display, counts, color=colors)
591
- ax1.set_xlabel('Number of Training Images', fontsize=12)
592
- ax1.set_title('Training Data Distribution\n(Class Imbalance)', fontsize=14)
593
- ax1.axvline(x=np.mean(counts), color='green', linestyle='--', label=f'Mean: {int(np.mean(counts))}')
594
- ax1.legend()
595
-
596
- # Pie chart
597
- ax2.pie(counts, labels=classes_display, autopct='%1.1f%%', startangle=90)
598
- ax2.set_title('Class Distribution Percentage', fontsize=14)
599
-
600
- plt.tight_layout()
601
- buf = BytesIO()
602
- plt.savefig(buf, format='png', dpi=100, bbox_inches='tight')
603
- plt.close()
604
- buf.seek(0)
605
- return Image.open(buf)
606
-
607
- def create_performance_comparison():
608
- """Compare model performance across classes"""
609
- fig, ax = plt.subplots(figsize=(12, 6))
610
-
611
- classes_display = [CLASS_NAMES[c] for c in CLASSES]
612
- vit_scores = [VIT_METRICS['per_class_f1'][c] for c in CLASSES]
613
- bio_scores = [BIOMEDCLIP_METRICS['per_class_f1'][c] for c in CLASSES]
614
-
615
- x = np.arange(len(classes_display))
616
- width = 0.35
617
-
618
- ax.bar(x - width/2, vit_scores, width, label='ViT Model', alpha=0.8, color='#3498db')
619
- ax.bar(x + width/2, bio_scores, width, label='BiomedCLIP Model', alpha=0.8, color='#2ecc71')
620
-
621
- ax.set_ylabel('F1 Score', fontsize=12)
622
- ax.set_title('Per-Class Model Performance Comparison', fontsize=14, pad=20)
623
- ax.set_xticks(x)
624
- ax.set_xticklabels(classes_display, rotation=45, ha='right')
625
- ax.legend()
626
- ax.grid(axis='y', alpha=0.3)
627
- ax.set_ylim(0, 1)
628
-
629
- plt.tight_layout()
630
- buf = BytesIO()
631
- plt.savefig(buf, format='png', dpi=100, bbox_inches='tight')
632
- plt.close()
633
- buf.seek(0)
634
- return Image.open(buf)
635
-
636
- def predict_with_model(image, model, model_name):
637
- """Make prediction with a specific model"""
638
- inputs = processor(images=image, return_tensors="pt")
639
- inputs = {k: v.to(device) for k, v in inputs.items()}
640
-
641
- with torch.no_grad():
642
- outputs = model(**inputs)
643
- probs = torch.nn.functional.softmax(outputs.logits, dim=-1)[0].cpu().numpy()
644
-
645
- results = {CLASS_NAMES[CLASSES[i]]: float(probs[i]) for i in range(len(CLASSES))}
646
-
647
- # Get top prediction
648
- top_idx = int(np.argmax(probs))
649
- top_prob = float(probs[top_idx])
650
- top_class = CLASS_NAMES[CLASSES[top_idx]]
651
-
652
- # Calculate entropy
653
- entropy = -sum(p * np.log(p + 1e-10) for p in probs if p > 0.01)
654
- max_entropy = np.log(7)
655
- normalized_entropy = entropy / max_entropy
656
-
657
- return results, top_class, top_prob, normalized_entropy, probs
658
-
659
- def analyze_image(image):
660
- """Complete analysis with both models"""
661
- if image is None:
662
- return {}, {}, "", "", None, None, None
663
-
664
- # Get predictions from both models
665
- vit_results, vit_top, vit_conf, vit_ent, vit_probs = predict_with_model(image, vit_model, "ViT")
666
- bio_results, bio_top, bio_conf, bio_ent, bio_probs = predict_with_model(image, biomedclip_model, "BiomedCLIP")
667
-
668
- # Comparison analysis
669
- agreement = "✅ Models Agree" if vit_top == bio_top else "⚠️ Models Disagree"
670
-
671
- comparison = f"""
672
- ### 🔄 Model Comparison Analysis
673
-
674
- **{agreement}**
675
-
676
- | Metric | ViT Model | BiomedCLIP Model |
677
- |--------|-----------|------------------|
678
- | Top Prediction | {vit_top} | {bio_top} |
679
- | Confidence | {vit_conf*100:.1f}% | {bio_conf*100:.1f}% |
680
- | Uncertainty | {vit_ent:.1%} | {bio_ent:.1%} |
681
-
682
- **Educational Insight:**
683
- """
684
-
685
- if vit_top == bio_top:
686
- comparison += f"\n- Both models predict **{vit_top}**\n"
687
- comparison += f"- Agreement suggests strong visual features for this class\n"
688
- if abs(vit_conf - bio_conf) > 0.2:
689
- comparison += f"- However, confidence differs by {abs(vit_conf - bio_conf)*100:.0f}%!\n"
690
- comparison += f"- Shows models use different decision strategies\n"
691
- else:
692
- comparison += f"\n- **Disagreement reveals ambiguity!**\n"
693
- comparison += f"- ViT sees: {vit_top} ({vit_conf*100:.0f}%)\n"
694
- comparison += f"- BiomedCLIP sees: {bio_top} ({bio_conf*100:.0f}%)\n"
695
- comparison += f"- This lesion has overlapping features between classes\n"
696
- comparison += f"- Real-world medical AI must handle such uncertainty\n"
697
-
698
- # Detailed educational insights
699
- insights = f"""
700
- ### 📊 Deep Learning Analysis
701
-
702
- **Prediction Entropy:**
703
- - ViT: {vit_ent:.3f} (uncertainty: {vit_ent:.1%})
704
- - BiomedCLIP: {bio_ent:.3f} (uncertainty: {bio_ent:.1%})
705
-
706
- **What This Teaches:**
707
- """
708
-
709
- if max(vit_ent, bio_ent) > 0.8:
710
- insights += "\n⚠️ **High Uncertainty Detected**\n"
711
- insights += "- Models are confused between multiple classes\n"
712
- insights += "- Image may have ambiguous features\n"
713
- insights += "- Demonstrates why ensemble methods matter\n"
714
- insights += "- In practice, this case would need expert review\n"
715
-
716
- insights += f"\n**Class Probabilities Breakdown:**\n\n"
717
- insights += "| Class | ViT | BiomedCLIP | Difference |\n"
718
- insights += "|-------|-----|------------|------------|\n"
719
- for i, cls in enumerate(CLASSES):
720
- diff = abs(vit_probs[i] - bio_probs[i])
721
- insights += f"| {CLASS_NAMES[cls]} | {vit_probs[i]*100:.1f}% | {bio_probs[i]*100:.1f}% | {diff*100:.1f}% |\n"
722
-
723
- insights += f"\n**Training Data Context:**\n"
724
- insights += f"- {CLASS_NAMES[CLASSES[np.argmax(vit_probs)]]} had {CLASS_DISTRIBUTION[CLASSES[np.argmax(vit_probs)]]} training samples\n"
725
- insights += f"- Rare classes (df, vasc) often get lower confidence\n"
726
- insights += f"- Models are biased toward common classes (nv: 67% of data)\n"
727
-
728
- # Get static visualizations
729
- confusion_plot = create_confusion_matrix_plot()
730
- distribution_plot = create_data_distribution_plot()
731
- performance_plot = create_performance_comparison()
732
-
733
- return (vit_results, bio_results, comparison, insights,
734
- confusion_plot, distribution_plot, performance_plot)
735
-
736
- # Create the comprehensive interface
737
- with gr.Blocks(title="Medical Image AI Lab - Complete", theme="soft") as demo:
738
- gr.Markdown("""
739
- # 🔬 Medical Image AI Lab - Complete Educational Platform
740
- ### Learn How Computer Vision Models Analyze, Compare, and Misclassify Medical Images
741
-
742
- **For ML/AI Students, Researchers, and Educators**
743
-
744
- This platform provides deep insights into:
745
- - Multi-model comparison and disagreement analysis
746
- - Class imbalance effects on predictions
747
- - Performance metrics across different lesion types
748
- - Real confusion matrices from model evaluation
749
- - Training data distribution impact
750
- """)
751
-
752
- with gr.Row():
753
- with gr.Column(scale=1):
754
- image_input = gr.Image(type="pil", label="📸 Upload Dermoscopy Image")
755
- analyze_btn = gr.Button("🔍 Complete Analysis", variant="primary", size="lg")
756
-
757
- gr.Markdown("""
758
- ### 💡 What Makes This Educational
759
-
760
- **Dual Model Comparison:**
761
- - See how different architectures make different decisions
762
- - Observe when models agree vs disagree
763
- - Understand confidence calibration
764
-
765
- **Visual Explanations:**
766
- - Confusion matrices reveal systematic errors
767
- - Performance charts expose class-specific weaknesses
768
- - Data distribution shows training bias
769
-
770
- **Real-World Context:**
771
- - Training data imbalance visualization
772
- - Per-class performance metrics
773
- - Entropy and uncertainty quantification
774
- """)
775
-
776
- with gr.Column(scale=1):
777
- with gr.Tabs():
778
- with gr.Tab("🎯 Predictions"):
779
- gr.Markdown("### ViT Model Predictions")
780
- vit_output = gr.Label(num_top_classes=7, label="ViT Probabilities")
781
-
782
- gr.Markdown("### BiomedCLIP Model Predictions")
783
- bio_output = gr.Label(num_top_classes=7, label="BiomedCLIP Probabilities")
784
-
785
- with gr.Tab("🔄 Comparison"):
786
- comparison_output = gr.Markdown()
787
-
788
- with gr.Tab("📊 Deep Analysis"):
789
- insights_output = gr.Markdown()
790
-
791
- with gr.Tab("📈 Performance"):
792
- gr.Markdown("### Model Confusion Matrix")
793
- confusion_output = gr.Image(label="Where the model gets confused")
794
-
795
- gr.Markdown("### Training Data Distribution")
796
- distribution_output = gr.Image(label="Class imbalance in training")
797
-
798
- gr.Markdown("### Per-Class Performance")
799
- performance_output = gr.Image(label="F1 scores by lesion type")
800
-
801
- gr.Markdown("""
802
- ---
803
-
804
- ## 📚 Understanding the Platform
805
-
806
- ### Model Architectures
807
-
808
- **ViT (Vision Transformer)**
809
- - Pre-trained on ImageNet
810
- - Fine-tuned on HAM10000
811
- - Test Accuracy: 48.97%
812
-
813
- **BiomedCLIP**
814
- - Pre-trained on biomedical images
815
- - Specialized for medical imaging
816
- - Test Accuracy: 51.16%
817
-
818
- **Key Insight:** Only 2.2% improvement despite medical specialization! This teaches us:
819
- - Domain-specific pre-training helps, but isn't magic
820
- - Dataset quality matters more than model choice
821
- - Class imbalance remains the dominant challenge
822
-
823
- ### Why 51% is Actually Good (Educational Context)
824
-
825
- - Random guessing: 14.3%
826
- - Our best model: 51.16%
827
- - **3.6x better than random**
828
- - 73% of maximum possible improvement
829
-
830
- ### Common Failure Patterns (Learning Opportunities)
831
-
832
- 1. **Nevi Bias** - Model over-predicts common class (67% of training data)
833
- 2. **Rare Class Struggles** - df and vasc have <2% representation
834
- 3. **Visual Similarity** - Melanoma vs nevi are genuinely difficult
835
- 4. **Overconfidence** - Model can be 90% sure and still wrong
836
-
837
- ### Experiments to Try
838
-
839
- **Test Model Robustness:**
840
- - Upload images with different lighting
841
- - Try blurry or partially obscured lesions
842
- - Test on edge cases (very small or large lesions)
843
-
844
- **Explore Model Disagreement:**
845
- - Find images where models disagree strongly
846
- - Analyze which classes cause most confusion
847
- - Compare confidence levels between models
848
-
849
- **Study Failure Modes:**
850
- - Look for patterns in misclassifications
851
- - Check if models fail on same images
852
- - Examine probability distributions for failed predictions
853
-
854
- ---
855
-
856
- ## �� For Educators & Students
857
-
858
- ### Classroom Applications
859
-
860
- **Teach Key ML Concepts:**
861
- - Confusion matrices and error analysis
862
- - Class imbalance and sampling strategies
863
- - Model calibration and confidence
864
- - Transfer learning effectiveness
865
- - Multi-model ensemble benefits
866
-
867
- **Discussion Questions:**
868
- - Why does medical AI need higher accuracy than 51%?
869
- - How would you improve this model?
870
- - What metrics matter most in medical contexts?
871
- - When should models abstain from predictions?
872
-
873
- ### Research Directions
874
-
875
- - Implement ensemble methods
876
- - Try different augmentation strategies
877
- - Experiment with class balancing techniques
878
- - Develop uncertainty quantification methods
879
- - Study transfer learning from different domains
880
-
881
- ---
882
-
883
- ## ⚠️ Critical Disclaimer
884
-
885
- **EDUCATIONAL USE ONLY - NOT FOR MEDICAL DIAGNOSIS**
886
-
887
- This platform demonstrates ML concepts and limitations.
888
- It is NOT:
889
- - ❌ A medical device
890
- - ❌ For clinical diagnosis
891
- - ❌ For treatment decisions
892
- - ❌ A replacement for dermatologists
893
-
894
- **For actual medical concerns, always consult a board-certified dermatologist.**
895
-
896
- ---
897
-
898
- ## 📖 Additional Resources
899
-
900
- - [HAM10000 Dataset Paper](https://arxiv.org/abs/1803.10417)
901
- - [Vision Transformers Explained](https://arxiv.org/abs/2010.11929)
902
- - [Medical AI Challenges](https://www.nature.com/articles/s41591-020-0842-6)
903
- - [Model Calibration in Deep Learning](https://arxiv.org/abs/1706.04599)
904
-
905
- **Built for ML Education | Models: ViT (48.97%) & BiomedCLIP (51.16%) | Dataset: HAM10000 (10,015 images)**
906
- """)
907
 
908
- # Connect the interface
909
  analyze_btn.click(
910
  fn=analyze_image,
911
  inputs=image_input,
@@ -913,5 +279,4 @@ with gr.Blocks(title="Medical Image AI Lab - Complete", theme="soft") as demo:
913
  confusion_output, distribution_output, performance_output]
914
  )
915
 
916
- if __name__ == "__main__":
917
- demo.launch()
 
1
  """
2
+ Medical Image AI Lab - Educational Platform with Gallery and Benchmarking
 
 
 
3
  """
4
  import gradio as gr
5
  import torch
 
11
  from io import BytesIO
12
  import json
13
  import os
 
 
14
 
15
  CLASSES = ['akiec', 'bcc', 'bkl', 'df', 'mel', 'nv', 'vasc']
16
  CLASS_NAMES = {
 
29
  }
30
 
31
  VIT_METRICS = {
32
+ 'accuracy': 0.4897,
33
+ 'per_class_f1': {'nv': 0.65, 'mel': 0.42, 'bkl': 0.38, 'bcc': 0.35, 'akiec': 0.28, 'vasc': 0.20, 'df': 0.15}
 
 
 
34
  }
35
 
36
  BIOMEDCLIP_METRICS = {
37
+ 'accuracy': 0.5116,
38
+ 'per_class_f1': {'nv': 0.68, 'mel': 0.45, 'bkl': 0.40, 'bcc': 0.38, 'akiec': 0.30, 'vasc': 0.22, 'df': 0.18}
 
 
 
39
  }
40
 
41
  CONFUSION_MATRIX = np.array([
 
58
  biomedclip_model = biomedclip_model.to(device).eval()
59
  print("Models loaded!")
60
 
 
61
  try:
62
  with open('example_images.json', 'r') as f:
63
  EXAMPLE_METADATA = json.load(f)
 
142
  top_idx = int(np.argmax(probs))
143
  top_prob = float(probs[top_idx])
144
  top_class = CLASS_NAMES[CLASSES[top_idx]]
 
145
  entropy = -sum(p * np.log(p + 1e-10) for p in probs if p > 0.01)
146
  normalized_entropy = entropy / np.log(7)
147
 
148
  return results, top_class, top_prob, normalized_entropy, probs
149
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
150
  def analyze_image(image):
151
  if image is None:
152
+ return {}, {}, "", "", None, None, None
153
 
154
  vit_results, vit_top, vit_conf, vit_ent, vit_probs = predict_with_model(image, vit_model)
155
  bio_results, bio_top, bio_conf, bio_ent, bio_probs = predict_with_model(image, biomedclip_model)
156
 
157
+ agreement = "✅ Agree" if vit_top == bio_top else "⚠️ Disagree"
 
 
 
 
 
 
 
 
 
 
 
 
 
 
158
 
159
+ comparison = f"### 🔄 Model Comparison\n\n**{agreement}**\n\n"
160
+ comparison += f"| Metric | ViT | BiomedCLIP |\n|--------|-----|------------|\n"
161
+ comparison += f"| Prediction | {vit_top} | {bio_top} |\n"
162
+ comparison += f"| Confidence | {vit_conf*100:.1f}% | {bio_conf*100:.1f}% |\n"
 
 
163
 
164
+ insights = f"### 📊 Analysis\n\n**Entropy:** ViT: {vit_ent:.2f}, Bio: {bio_ent:.2f}\n\n"
165
+ insights += "| Class | ViT | Bio | Diff |\n|-------|-----|-----|------|\n"
 
 
 
 
 
 
 
 
 
 
166
  for i, cls in enumerate(CLASSES):
167
  diff = abs(vit_probs[i] - bio_probs[i])
168
  insights += f"| {CLASS_NAMES[cls]} | {vit_probs[i]*100:.1f}% | {bio_probs[i]*100:.1f}% | {diff*100:.1f}% |\n"
 
171
  distribution_plot = create_data_distribution_plot()
172
  performance_plot = create_performance_comparison()
173
 
 
 
 
174
  return (vit_results, bio_results, comparison, insights,
175
+ confusion_plot, distribution_plot, performance_plot)
176
 
 
177
  with gr.Blocks(title="Medical Image AI Lab", theme="soft") as demo:
178
+ gr.Markdown("# 🔬 Medical Image AI Lab\n### Educational Platform for ML/AI Students")
 
 
 
 
 
179
 
180
  with gr.Tabs():
181
+ with gr.Tab("🔍 Analyze"):
182
  with gr.Row():
183
+ with gr.Column():
184
+ image_input = gr.Image(type="pil", label="Upload Image")
185
+ analyze_btn = gr.Button("🔍 Analyze", variant="primary")
186
+ with gr.Column():
 
187
  with gr.Tabs():
188
  with gr.Tab("Predictions"):
189
  vit_output = gr.Label(num_top_classes=7, label="ViT")
 
192
  comparison_output = gr.Markdown()
193
  with gr.Tab("Analysis"):
194
  insights_output = gr.Markdown()
195
+ with gr.Tab("Visualizations"):
196
  confusion_output = gr.Image(label="Confusion Matrix")
197
  distribution_output = gr.Image(label="Data Distribution")
198
+ performance_output = gr.Image(label="Performance")
 
 
 
199
 
200
  with gr.Tab("📸 Example Gallery"):
201
+ gr.Markdown("## Example Cases\n\nReal examples showing model behavior:")
 
 
 
 
202
 
203
  with gr.Tabs():
204
+ with gr.Tab("✅ Correct"):
205
+ gr.Markdown("**High confidence, correct predictions**")
206
+ examples_correct = []
 
 
 
 
 
 
 
207
  if 'high_conf_correct' in EXAMPLE_METADATA:
208
  for ex in EXAMPLE_METADATA['high_conf_correct']:
209
  img_path = f"gallery_examples/{ex['image']}"
210
  if os.path.exists(img_path):
211
+ examples_correct.append((img_path,
212
+ f"True: {CLASS_NAMES[ex['true_label']]}, Predicted: {CLASS_NAMES[ex['vit_pred']]} ({ex['vit_conf']*100:.0f}%)"))
213
+ if examples_correct:
214
+ gr.Gallery(value=examples_correct, columns=3)
 
 
 
215
 
216
+ with gr.Tab("❌ Wrong"):
217
+ gr.Markdown("**High confidence but WRONG - shows overconfidence**")
218
+ examples_wrong = []
 
 
 
 
 
 
 
 
219
  if 'high_conf_wrong' in EXAMPLE_METADATA:
220
  for ex in EXAMPLE_METADATA['high_conf_wrong']:
221
  img_path = f"gallery_examples/{ex['image']}"
222
  if os.path.exists(img_path):
223
+ examples_wrong.append((img_path,
224
+ f"TRUE: {CLASS_NAMES[ex['true_label']]} ❌ Predicted: {CLASS_NAMES[ex['vit_pred']]} ({ex['vit_conf']*100:.0f}%)"))
225
+ if examples_wrong:
226
+ gr.Gallery(value=examples_wrong, columns=3)
 
 
 
227
 
228
+ with gr.Tab("🤔 Disagree"):
229
+ gr.Markdown("**Models predict different classes - reveals ambiguity**")
230
+ examples_disagree = []
 
 
 
 
 
 
 
 
 
231
  if 'models_disagree' in EXAMPLE_METADATA:
232
  for ex in EXAMPLE_METADATA['models_disagree']:
233
  img_path = f"gallery_examples/{ex['image']}"
234
  if os.path.exists(img_path):
235
+ examples_disagree.append((img_path,
236
+ f"True: {CLASS_NAMES[ex['true_label']]} | ViT: {CLASS_NAMES[ex['vit_pred']]} vs Bio: {CLASS_NAMES[ex['bio_pred']]}"))
237
+ if examples_disagree:
238
+ gr.Gallery(value=examples_disagree, columns=3)
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
239
 
240
+ with gr.Tab("📊 Benchmarking"):
241
  gr.Markdown("""
242
+ ## Performance Benchmarking
243
+
244
+ | Model | Accuracy | Context |
245
+ |-------|----------|---------|
246
+ | **Random** | **14.3%** | 1 in 7 classes |
247
+ | **Your ViT** | **48.97%** | Educational demo |
248
+ | **Your BiomedCLIP** | **51.16%** | Medical-specialized |
249
+ | **HAM10000 Paper** | **76.5%** | Research team, 2018 |
250
+ | **SOTA** | **89.2%** | Ensemble + tuning, 2023 |
251
+ | **Dermatologists** | **75-85%** | Without biopsy |
252
+
253
+ ### Why 51% is Good for Learning:
254
+ - **3.6x better than random** (14% 51%)
255
+ - Shows model IS learning patterns
256
+ - Reveals real medical AI challenges
257
+ - Gap to 89% teaches improvement strategies
258
+
259
+ ### What it takes to reach 85%+:
260
+ - Research team of 5-10 people
261
+ - Months of development
262
+ - $10K+ compute costs
263
+ - Ensemble methods
264
+ - Expert validation
265
+
266
+ **Your model teaches more than a perfect model would!**
267
+
268
+ ### References:
269
+ - [HAM10000 Dataset](https://arxiv.org/abs/1803.10417)
270
+ - [Medical AI Challenges](https://www.nature.com/articles/s41591-020-0842-6)
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
271
  """)
272
 
273
+ gr.Markdown("---\n## ⚠️ Educational Use Only\n\nNOT for medical diagnosis. Consult a dermatologist for medical concerns.")
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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  analyze_btn.click(
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  fn=analyze_image,
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  inputs=image_input,
 
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  confusion_output, distribution_output, performance_output]
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  )
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+ demo.launch()