Question
You are given vcf.infer.ancestry.q1.vcf.gz, a bgzipped VCF containing variants on chromosome 1 for four unrelated individuals: Sample1, Sample2, Sample3, Sample4. Infer each individual’s ancestry as one of: AFR (African), ASJ (Ashkenazi Jew), EUR (European), EAS (East Asian), MID (Middle Eastern), SAS (South Asian), OCE (Oceania). Output 4 labels in Sample1→Sample4 order, comma-separated with no spaces (e.g., AFR,EUR,SAS,OCE).
- Predicted answer
AFR,AFR,SAS,EURMost likely answer for this question; not uniquely determined from submitted scores.- Domain
- Population Genetics
- Question style
- Metadata Recovery
An answer can be uniquely inferred for 54 of 100 questions from submitted scores. Green: correct · Red: incorrect. For questions without a uniquely determined answer: Blue: matches prediction · Orange: differs from prediction. These are inferred answer checks, not official per-question grades.
Galaxy
12/12 terminal item results
UDT = user-defined tool: custom code executed by Galaxy. Route badges summarize analysis tools, excluding uploads and automatic conversions. How usage is counted.
Codex GPT-5.5
3 replicates
Codex GPT-5.5
Replicate 1
Matches predictionUDT-only
AnswerAFR,AFR,SAS,EUR
WorkflowBCFtools→VCF ancestry inference→VCF ancestry inference v2→VCF ancestry inference v3→VCF ancestry inference v4→4 more tools
- Total tokens
- 4.3M
- Output
- 39.8K
Codex GPT-5.5
Replicate 2
Matches predictionUDT-only
AnswerAFR,AFR,SAS,EUR
WorkflowVCF ancestry diagnostic→VCF ancestry diagnostic gzip-aware→VCF 1000 Genomes exact match diagnostic→VCF 1000 Genomes exact match subset→VCF 1000 Genomes population summary
- Total tokens
- 1.2M
- Output
- 17.4K
Codex GPT-5.5
Replicate 3
RerunMatches predictionUDT-only
AnswerAFR,AFR,SAS,EUR
WorkflowVCF ancestry diagnostic→gnomAD build allele diagnostic→gnomAD ancestry classifier→gnomAD parser debug→1000G ancestry classifier→1 more tools
- Total tokens
- 3.3M
- Output
- 26.4K
Codex GPT-5.6 Sol
3 replicates
Codex GPT-5.6 Sol
Replicate 1
Matches predictionUDT + standard tools
AnswerAFR,AFR,SAS,EUR
WorkflowBcftools Stats→Galaxy UDT→ancestry_qc→Ancestry QC→Ancestry VCF QC→2 more tools
- Total tokens
- 3.8M
- Output
- 18.6K
Codex GPT-5.6 Sol
Replicate 2
Matches predictionUDT + standard tools
AnswerAFR,AFR,SAS,EUR
WorkflowBcftools Stats→VCF structure diagnostic→SGDP exact genotype identity match
- Total tokens
- 3.1M
- Output
- 16.1K
Codex GPT-5.6 Sol
Replicate 3
Matches predictionUDT-only
AnswerAFR,AFR,SAS,EUR
WorkflowVCF ancestry diagnostic→VCF ancestry diagnostic v2→SGDP tree coordinate and allele overlap diagnostic→SGDP tree coordinate and allele overlap diagnostic v2→SGDP exact genotype ancestry match
- Total tokens
- 3.6M
- Output
- 17.4K
Codex + DeepSeek-v4-pro-0813
3 replicates
Codex + DeepSeek-v4-pro-0813
Replicate 1
Matches predictionUDT + standard tools
AnswerAFR,AFR,SAS,EUR
WorkflowBcftools View→Ancestry Likelihood
- Total tokens
- 51.1M
- Output
- 92.0K
Codex + DeepSeek-v4-pro-0813
Replicate 2
Matches predictionUDT + standard tools
AnswerAFR,AFR,SAS,EUR
WorkflowCrossmap Vcf→Ancestry Probe→Ancestry Probe v2→Ancestry Probe v3→Ancestry Classify→2 more tools
- Total tokens
- 55.8M
- Output
- 205.0K
Codex + DeepSeek-v4-pro-0813
Replicate 3
Matches predictionUDT-only
AnswerAFR,AFR,SAS,EUR
WorkflowSGDP ancestry match
- Total tokens
- 42.2M
- Output
- 74.8K
Codex GPT-5.6 Luna
3 replicates
Codex GPT-5.6 Luna
Replicate 1
Matches predictionUDT + standard tools
AnswerAFR,AFR,SAS,EUR
WorkflowBcftools Stats→Bcftools Query→Tp Head Tool→VCF ancestry input diagnostics→VCF ancestry marker probe→5 more tools
- Total tokens
- 20.8M
- Output
- 94.5K
Codex GPT-5.6 Luna
Replicate 2
Matches predictionUDT + standard tools
AnswerAFR,AFR,SAS,EUR
WorkflowBcftools Stats→Bcftools Query→VCF ancestry diagnostic→VCF pairwise ancestry diagnostic→Upload1→6 more tools
- Total tokens
- 18.5M
- Output
- 76.9K
Codex GPT-5.6 Luna
Replicate 3
Matches predictionUDT-only
AnswerAFR,AFR,SAS,EUR
WorkflowVCF ancestry input diagnostic→Upload1→VCF reference convention probe→VCF reference identity probe→Remote indexed VCF probe→2 more tools
- Total tokens
- 13.4M
- Output
- 50.8K