Datasets:
Modality table: realistic atac example + context column header
Browse files
README.md
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@@ -87,7 +87,7 @@ list is `model.modality_info`. The `Dtype` column is the `raw`/decoded Python ty
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them to condition on cell-state / assay metadata — the `Conditioning context`
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column shows a real example for each.
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| Modality | Track | Dtype | Description | Example | Conditioning context (`
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| `rna_seq` | nucleic | `str` | RNA/DNA nucleotide sequence (unspliced) — the core nucleic input | `"UUUGGAAACUUU…"` | — |
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| `cds_junctions` | nucleic | `str` | Coding-sequence (CDS) exon–exon junction positions, per position | `"…0001000…"` | — |
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@@ -97,7 +97,7 @@ column shows a real example for each.
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| `feature_type` | nucleic | `list[str]` | Genomic feature-type label | `['protein_coding']` | — |
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| `phylop_human` | nucleic | `list[float]` | phyloP evolutionary-conservation score (human), per position | `[-0.66, 1.04, …]` | — |
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| `phylop_mouse` | nucleic | `list[float]` | phyloP evolutionary-conservation score (mouse), per position | `[-0.26, -0.92, …]` | — |
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| `atac` | nucleic | `str` | ATAC-seq chromatin-accessibility signal, per position (`N` = unmeasured). **Cell-state-conditional** | `"…
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| `cage` | nucleic | `list[float]` | CAGE transcription-start signal, per position. **Cell-state-conditional** | `[0.001, 0.001, …]` | `"skeletal muscle, human, fetal"` |
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| `rasp2` | nucleic | `list[float]` | RASP2 (icSHAPE-style) RNA-structure reactivity, per position (`nan` where unmeasured). **Condition-conditional** | `[nan, 0.42, …]` | `"technology: icSHAPE, reagent: NAI-N3, in vivo, cell line: K562, human"` |
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| `aa_seq` | protein | `str` | Amino-acid (protein) sequence — the core protein input | `"MTPPERLFLP…"` | — |
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them to condition on cell-state / assay metadata — the `Conditioning context`
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column shows a real example for each.
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| Modality | Track | Dtype | Description | Example | Conditioning context (`context`) |
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|---|---|---|---|---|---|
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| `rna_seq` | nucleic | `str` | RNA/DNA nucleotide sequence (unspliced) — the core nucleic input | `"UUUGGAAACUUU…"` | — |
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| `cds_junctions` | nucleic | `str` | Coding-sequence (CDS) exon–exon junction positions, per position | `"…0001000…"` | — |
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| `feature_type` | nucleic | `list[str]` | Genomic feature-type label | `['protein_coding']` | — |
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| `phylop_human` | nucleic | `list[float]` | phyloP evolutionary-conservation score (human), per position | `[-0.66, 1.04, …]` | — |
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| `phylop_mouse` | nucleic | `list[float]` | phyloP evolutionary-conservation score (mouse), per position | `[-0.26, -0.92, …]` | — |
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| `atac` | nucleic | `str` | ATAC-seq chromatin-accessibility signal, per position (`N` = unmeasured). **Cell-state-conditional** | `"…N888887…"` | `"human, GM23338 lymphoblastoid cell line (EBV-transformed B lymphocyte)"` |
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| `cage` | nucleic | `list[float]` | CAGE transcription-start signal, per position. **Cell-state-conditional** | `[0.001, 0.001, …]` | `"skeletal muscle, human, fetal"` |
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| `rasp2` | nucleic | `list[float]` | RASP2 (icSHAPE-style) RNA-structure reactivity, per position (`nan` where unmeasured). **Condition-conditional** | `[nan, 0.42, …]` | `"technology: icSHAPE, reagent: NAI-N3, in vivo, cell line: K562, human"` |
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| `aa_seq` | protein | `str` | Amino-acid (protein) sequence — the core protein input | `"MTPPERLFLP…"` | — |
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