bgl3 · Graph CNN

reference_bgl3_gcn_plm_contiguousf1_20261104-181625

Metrics

Set	mse	pearsonr	spearmanr	r2	above_wt_n	above_wt_spearmanr	budget_to_max	hit_rate_at_10	mean_at_10	max_at_10	captured_at_10	hit_rate_at_50	mean_at_50	max_at_50	precision_at_50	captured_at_50	hit_rate_at_100	mean_at_100	max_at_100	precision_at_100	captured_at_100	hit_rate_at_1pct	mean_at_1pct	max_at_1pct	precision_at_1pct	captured_at_1pct
train	1.7692	0.3118	0.2527	0.0956	5657.0000	-0.0729	3845.0000	0.8000	0.5311	1.5945	0.2531	0.6000	0.2105	2.2054	0.0000	0.1826	0.5400	0.0727	2.5002	0.0100	0.1467	0.5200	0.0348	2.5002	0.0133	0.1387
validation	2.0886	0.2024	0.1127	0.0217	1465.0000	-0.0385	1579.0000	0.2000	-0.2378	0.3847	0.0791	0.4200	-0.3763	2.1466	0.0200	0.0413	0.3600	-0.4607	2.3136	0.0300	0.0126	0.4651	-0.1595	2.1466	0.0000	0.1153
test	1.5446	0.3190	0.2909	0.0675	1203.0000	0.0038	1861.0000	0.5000	0.4075	2.0174	0.2647	0.4800	0.1859	2.3136	0.0400	0.2013	0.3900	0.0785	2.3136	0.0300	0.1704	0.4706	0.1440	2.0174	0.0000	0.1791

Loss per epoch

training validation

Config

name: reference_bgl3_gcn_plm_contiguousf1
task: dms
data:
  dataset: bgl3
  encoding: one_hot,aa_index,plm,plm_sum
  split_dir: null
  graph_threshold: 6
  split_scheme: contiguous
  split_fold: 1
model:
  name: gcn
  filters:
  - 32
  hidden:
  - 100
  dropout: 0.2
train:
  epochs: 300
  batch_size: 128
  learning_rate: 0.0001
  patience: 15
  min_delta: 1.0e-05
  seed: 7