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History: 9 commits

Miyu Horiuchi

Deploy app from main@a3254bf (no paper/ binaries)

0ed74db 3 days ago

lora
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
lora_weighted_anaerobe
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
baseline_results.json

160 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
baseline_results_pre_pme.json

35.7 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
baseline_results_v0.json

8.79 kB
Final demo deliverable: v1 baseline + 5K uncultured predictions + recommender online about 1 month ago
carveme_smoke_status.json

1.01 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
carveme_smoke_status.md

1.44 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
combined_results.json

22.4 kB
Expand training corpus to 46K strains: species-name → NCBI genome + isolation features 27 days ago
compare_v1_v2.log

1.32 kB
v2 results: ESM-2 t6 (8M, 20-protein sample) loses to v1 hand-crafted features on all 4 phenotype targets about 1 month ago
embedding_results.json

13.1 kB
v2 results: ESM-2 t6 (8M, 20-protein sample) loses to v1 hand-crafted features on all 4 phenotype targets about 1 month ago
eval.log

65 Bytes
Final overnight commit: trained baseline + eval report + summary about 1 month ago
eval_report.md

9.67 kB
Add MediaDive-derived features (medium pH, NaCl, n_media) — all 4 targets improve 27 days ago
eval_report_v0.md

9.56 kB
Final demo deliverable: v1 baseline + 5K uncultured predictions + recommender online about 1 month ago
external_benchmark_manifest.parquet

658 kB
xet

Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
external_benchmark_manifest_5k.csv

614 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
external_benchmark_manifest_5k.parquet

205 kB
xet

Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
external_benchmark_manifest_5k_summary.json

386 Bytes
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
external_benchmark_status.json

883 Bytes
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
external_benchmark_status.md

1.8 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
extract_seqs_full.log

12.2 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
extract_seqs_smoke.log

5.06 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
genomespot_5k_benchmark.json

3.36 MB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
genomespot_5k_benchmark.md

848 Bytes
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
genomespot_smoke_benchmark.json

3.94 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
genomespot_smoke_benchmark.md

839 Bytes
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
hybrid_predictions.parquet

328 kB
xet

Deploy hybrid catalog predictions 12 days ago
lora_fold0_real.log

6.06 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
lora_oxygen_vs_all_task.md

1.03 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
lora_smoke.log

28.3 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
lora_smoke2.log

2.38 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
lora_vs_baseline.md

869 Bytes
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
materialize_pme.log

645 Bytes
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
media_recommender_drylab_benchmark.json

8.2 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
media_recommender_drylab_benchmark.md

1.8 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
phase_c.log

1.12 MB
Final demo deliverable: v1 baseline + 5K uncultured predictions + recommender online about 1 month ago
phase_e.log

2.19 kB
Final demo deliverable: v1 baseline + 5K uncultured predictions + recommender online about 1 month ago
retrain_with_pme.log

1.25 kB
Deploy app from main@a3254bf (no paper/ binaries) 3 days ago
run.log

503 Bytes
Final demo deliverable: v1 baseline + 5K uncultured predictions + recommender online about 1 month ago
score_uncultured_media.log

307 Bytes
UI prep: pre-train phenotype heads + pre-score uncultured media about 1 month ago
summary.log

61 Bytes
Final overnight commit: trained baseline + eval report + summary about 1 month ago
train.log

798 Bytes
Final demo deliverable: v1 baseline + 5K uncultured predictions + recommender online about 1 month ago
train_combined.log

463 Bytes
UI prep: pre-train phenotype heads + pre-score uncultured media about 1 month ago
train_phenotype_heads.log

607 Bytes
UI prep: pre-train phenotype heads + pre-score uncultured media about 1 month ago
train_v2.log

453 Bytes
v2 results: ESM-2 t6 (8M, 20-protein sample) loses to v1 hand-crafted features on all 4 phenotype targets about 1 month ago
uncultured_predictions.parquet

573 kB
xet

UI prep: pre-train phenotype heads + pre-score uncultured media about 1 month ago
v1_vs_v2_comparison.md

1.25 kB
v2 results: ESM-2 t6 (8M, 20-protein sample) loses to v1 hand-crafted features on all 4 phenotype targets about 1 month ago