Skip to content
Home / Catalog / Perturbation Convergence Testing from Synthetic Expression Profiles

Perturbation Convergence Testing from Synthetic Expression Profiles

  • Task ID: biostat.perturbation_convergence_testing
  • Domain: biostat
  • Subdomain: perturbation_genomics
  • Status: final
  • Benchmark set: seed42 (60 tasks)
  • Tags: perturb_seq, perturbation_convergence, differential_expression, high_dimensional_testing, feature_selection

Runtime and requirements

  • Estimated time: 25-50 minutes
  • Python: >=3.11
  • Packages: scikit-learn>=1.4
  • GPU required: no
  • Network required: no

Public input and output contract

Inputs

  • data/case_0/expression_matrix.csv (data): Case 0 cell-by-gene expression matrix with columns cell_id,G0000,...
  • data/case_0/cell_metadata.csv (data): Case 0 cell metadata with columns cell_id,condition
  • data/case_0/analysis_spec.json (data): Case 0 labels, alpha level, and required output schema
  • data/case_1/expression_matrix.csv (data): Case 1 cell-by-gene expression matrix with columns cell_id,G0000,...
  • data/case_1/cell_metadata.csv (data): Case 1 cell metadata with columns cell_id,condition
  • data/case_1/analysis_spec.json (data): Case 1 labels, alpha level, and required output schema

Outputs

  • analysis.py (code): Complete runnable analysis script
  • results/case_0/convergence_summary.json (data): Case 0 structured final conclusion, p-values, selected-feature counts, and interpretation
  • results/case_0/convergence_pvalues.csv (data): Case 0 directional and combined convergence p-values
  • results/case_0/convergence_decision.npy (data): Case 0 binary conclusion: 1=convergent, 0=not convergent
  • results/case_0/shared_feature_mask.npy (data): Case 0 binary mask over gene columns: 1=predicted shared affected feature
  • results/case_0/convergence_diagnostic.png (figure): Case 0 diagnostic plot supporting the convergence decision
  • results/case_1/convergence_summary.json (data): Case 1 structured final conclusion, p-values, selected-feature counts, and interpretation
  • results/case_1/convergence_pvalues.csv (data): Case 1 directional and combined convergence p-values
  • results/case_1/convergence_decision.npy (data): Case 1 binary conclusion: 1=convergent, 0=not convergent
  • results/case_1/shared_feature_mask.npy (data): Case 1 binary mask over gene columns: 1=predicted shared affected feature
  • results/case_1/convergence_diagnostic.png (figure): Case 1 diagnostic plot supporting the convergence decision

Public repository files

View this task in ASI-Bench

Formal benchmark task directories in the public repository are metadata-only. Versioned prompts and inputs are distributed through the pinned benchmark dataset.

Provenance

This task is included in the current seed42 benchmark set at dataset revision f11a199f71fb4b854ac43a1bf548d5df519141a9.

This page is generated only from files tracked in the public ASI-Bench repository at commit c9c1ba960854. Submission bundles, run logs, private scoring configuration, and private reference answers are not read by this page generator.