rewirebio.iobenchmarks
Evaluation

Geneformer: Combinatorial cell-label classification

Evaluation results

1 evaluation · 1 result. Different protocols are not a single leaderboard.

Filter evaluations

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: GeneformerTask: Combinatorial cell-label classification
Dataset: L1000
0.419 Partial label accuracy
unitless · unknown

Uncertainty: ± 0.0153 (type not stated)

Coverage: Not reported scored / Not reported eligible

Independent external evaluation · Source checked
Methods, coverage and source

Geneformer: Combinatorial cell-label classification

Partial-credit labels including cell type, perturbation, and dose.

Aggregation: Not reported

Cell2Sentence: Teaching Large Language Models the Language of Biology · Table 3, Partial label / Geneformer row, L1000 Acc column

Source checking is not independent reproduction. Release 2026-11-02-a7f03c9e55a5.

Research readiness

0 of 4 readiness checks met. These checks assess whether the evidence supports a reproducible investigation; a source-checked score alone does not meet them.

Readiness checks, gaps and artifacts

Release 2026-11-02-a7f03c9e55a5 · Evidence verified: Not verified

Evidence incomplete

Replay metrics

Exact outcomes, predictions, identifiers and evaluator are connected.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • Metrics are recomputed from the saved predictions: not yet verified

Verified: Not verified

Evidence incomplete

Investigate discrepancies

Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • Metrics are recomputed from the saved predictions: not yet verified
  • Sample annotations are recorded: not yet verified
  • Dependence between samples is assessed: not yet verified

Verified: Not verified

Evidence incomplete

Run locally

A pinned recipe describes the inputs, environment and resource requirements.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • A pinned run recipe exists: not yet verified
  • Compute requirements are estimated: not yet verified

Verified: Not verified

Evidence incomplete

Validate independently

Separate data and exposure records support an independent test.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • File checksums match the recorded files: not yet verified
  • Predictions are matched to the right samples: not yet verified
  • Score meaning and direction are confirmed: not yet verified
  • Independent validation data exist: not yet verified
  • Overlap with training data is checked: not yet verified

Verified: Not verified

Readiness describes the evidence in this release. Availability on your computer is checked separately when an investigation runs. Existing data exposure can prevent independent validation even when files are available.

Artifacts and reproduction

No verified artifact manifest is connected to this record yet. The gaps above identify what is needed before analysis can begin.

Evaluation procedure

Partial-credit labels including cell type, perturbation, and dose.

Configuration
Geneformer
Task
Combinatorial cell-label classification
Dataset
L1000
origin
Independent external evaluation
configuration
Not reported
protocol id
Not reported
dataset version
Not reported
split
Not reported
population
Not reported
inputs
Not reported
adaptation
Not reported
metric implementation
Not reported
aggregation
Not reported
budget
Not reported

Metadata review: needs review. Unreported conditions prevent automatic comparisons.

Reproduction

Split
Not reported
Adaptation
Not reported
Scoring implementation
Not reported

No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.

Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.

Evidence

Source checking verifies the cited claim or transcription. It does not establish independent reproduction.

Evidence table

Inspect claims, sources and review details

Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.

One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.

16 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-11-02-a7f03c9e55a5
Property and statementOriginal source and locationReview and provenance
Comparison: adaptation
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.adaptation

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: aggregation
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.aggregation

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: budget
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.budget

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: dataset version
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.dataset_version

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: inputs
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.inputs

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: metric implementation
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.metric_implementation

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: population
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.population

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: protocol id
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.protocol_id

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Comparison: split
Not reported
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.split

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Origin
independent_paper
Context-only references
Cell2Sentence: Teaching Large Language Models the Language of Biology

Original source ↗

No field-specific location recorded

Version: preprint archived 2024-10-29
Retrieved: 2026-09-16T10:41:16.533640+00:00

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.origin

Source artifact SHA-256: e088727d6e04857fccb7033a9b074e1850f775e86e7d2e99e603dde09558ab02

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

How to read the evidence

Sources and history

Release 2026-11-02-a7f03c9e55a5 · Record review: needs review

1 source record and release historyDownload this release (gzip)
Technical metadata and extraction receipts

Stable ID: evaluation-lit-028

areas
cells-tissues
tasks
Combinatorial cell-label classification
origin
independent_paper
protocol
Partial-credit labels including cell type, perturbation, and dose.
comparison
protocol id: Not reported; dataset version: Not reported; split: Not reported; population: Not reported; inputs: Not reported; adaptation: Not reported; metric implementation: Not reported; aggregation: Not reported; budget: Not reported
missing metadata
dataset version: reason: unextracted; model version: reason: unextracted; split: reason: unextracted; version: reason: unextracted
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