Codex GPT-5.5
Replicate 1
CorrectUDT-only
Answer
H3K9me3Workflow
Histone mark diagnosticHistone mark diagnostic fullHistone mark repeat contextHistone mark final label
- Total tokens
- 935.8K
- Output
- 16.5K
Question
I have a histone ChIP-seq ENCODE-style filtered tagAlign file (histone.chip.q1.signal.tagalign.gz) along with its control (histone.chip.q1.control.tagalign.gz), both hg38. I lost the metadata. Can you figure out the histone mark? Output exactly one label from this set: H3K4me3, H3K27ac, H3K4me1, H3K36me3, H3K27me3, H3K9me3.
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 resultsUDT = 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 replicatesCodex GPT-5.5
Replicate 2
CorrectUDT + standard tools
Answer
H3K9me3Workflow
Histone mark diagnostic chr1 chr2UDT render probeUDT render probe commandWc GnuGrep2 more tools
- Total tokens
- 2.3M
- Output
- 23.1K
Codex GPT-5.5
Replicate 3
CorrectUDT + standard tools
Answer
H3K9me3Workflow
ChIP Histone Mark DiagnosticChIP Histone Mark Diagnostic 2ChIP Histone Mark Diagnostic 3ChIP Histone Mark Diagnostic 4Macs2 Callpeak3 more tools
- Total tokens
- 3.3M
- Output
- 23.6K
Codex GPT-5.6 Sol
3 replicatesCodex GPT-5.6 Sol
Replicate 1
CorrectUDT-only
Answer
H3K9me3Workflow
Histone chr1 multiscale diagnosticHistone chr1 RefSeq profileHistone mark final classification
- Total tokens
- 1.5M
- Output
- 13.5K
Codex GPT-5.6 Sol
Replicate 2
CorrectUDT-only
Answer
H3K9me3Workflow
TagAlign content probe q1hg38 histone signature diagnostics q1Validated histone mark label q1
- Total tokens
- 5.1M
- Output
- 20.9K
Codex GPT-5.6 Sol
Replicate 3
CorrectUDT-only
Answer
H3K9me3Workflow
Chr1 histone mark diagnosticGenome-wide broad repressive histone diagnosticValidate broad domains against UCSC hg38 centromeresValidate broad domains against UCSC hg38 acen cytobandsFinal evidence-gated histone mark label
- Total tokens
- 3.2M
- Output
- 19.6K
Codex + DeepSeek-v4-pro-0813
3 replicatesCodex + DeepSeek-v4-pro-0813
Replicate 1
IncorrectStandard tools only
Answer
H3K4me1Workflow
Macs2 CallpeakChipseekerDatamash OpsAdd A Column1Bedtools Bedtobam6 more tools
- Total tokens
- 19.4M
- Output
- 73.3K
Codex + DeepSeek-v4-pro-0813
Replicate 2
RerunIncorrectStandard tools only
Answer
H3K27acWorkflow
macs2 callpeak → chipseeker → Count1 → Add a column1 → Summary Statistics1
- Total tokens
- 12.6M
- Output
- 45.3K
Codex + DeepSeek-v4-pro-0813
Replicate 3
IncorrectStandard tools only
Answer
H3K4me1Workflow
Macs2 CallpeakChipseekerDatamash OpsGroup and aggregateCount111 more tools
- Total tokens
- 11.0M
- Output
- 46.7K
Codex GPT-5.6 Luna
3 replicatesCodex GPT-5.6 Luna
Replicate 1
CorrectUDT + standard tools
Answer
H3K9me3Workflow
TagAlign distribution diagnosticTagAlign keyed-bin diagnosticMacs2 CallpeakMACS2 peak summaryMACS2 broad peak summary18 more tools
- Total tokens
- 22.6M
- Output
- 103.5K
Codex GPT-5.6 Luna
Replicate 2
CorrectUDT + standard tools
Answer
H3K9me3Workflow
Macs2 RandsampleMacs2 CallpeakTagAlign diagnosticTagAlign gene profileTagAlign repeat profile1 more tools
Codex GPT-5.6 Luna
Replicate 3
CorrectUDT + standard tools
Answer
H3K9me3Workflow
Upload1Macs2 CallpeakHistone ChIP-seq mark diagnosticsChipseekerDatamash Ops11 more tools
- Total tokens
- 18.9M
- Output
- 73.9K
Anycode
13/13 terminal item resultsCodex GPT-5.5
3 replicatesCodex GPT-5.5
Replicate 1
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsPython
Codex GPT-5.5
Replicate 2
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonpysam
Codex GPT-5.5
Replicate 3
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsPython
Codex GPT-5.6 Sol
3 replicatesCodex GPT-5.6 Sol
Replicate 1
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonpysam
Codex GPT-5.6 Sol
Replicate 2
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonR2 more tools
Codex GPT-5.6 Sol
Replicate 3
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonSciPy
Codex + DeepSeek-v4-pro-0813
3 replicatesCodex + DeepSeek-v4-pro-0813
Replicate 1
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonSciPy1 more tools
- Total tokens
- 3.5M
- Output
- 28.0K
Codex + DeepSeek-v4-pro-0813
Replicate 2
Correct
Answer
H3K9me3Workflow
Local codeSamtoolsBedtoolsPython
- Total tokens
- 7.1M
- Output
- 44.3K
Codex + DeepSeek-v4-pro-0813
Replicate 3
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonpysam1 more tools
- Total tokens
- 5.3M
- Output
- 51.5K
Codex GPT-5.6 Luna
3 replicatesCodex GPT-5.6 Luna
Replicate 1
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonSciPy1 more tools
Codex GPT-5.6 Luna
Replicate 2
Correct
Answer
H3K9me3Workflow
Local codePythonBedtoolsSamtoolspysam1 more tools
Codex GPT-5.6 Luna
Replicate 3
Correct
Answer
H3K9me3Workflow
Local codeBedtoolsSamtoolsPythonSciPy1 more tools
Codex GPT-6 Astra
1 replicateCodex GPT-6 Astra
Replicate 1
Correct
Answer
H3K9me3Workflow
Local codePythonSciPypysamBedtools
- Total tokens
- 332.7K
- Output
- 4.3K