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README.md
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@@ -27,8 +27,8 @@ Checkpoints behind the [CELL-FM CondenSeq demo](https://huggingface.co/spaces/Bo
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| `hpa/pls_anchor_nls.npz` | The cell PLS generation conditions on for nuclear signals: `cell` `(3, 512, 512)` nucleus/ER/microtubules and `protein` `(1, 512, 512)`, float32 in [-1, 1]. HPA gene PPM1G (Nucleoplasm), crop `392_B9_1_11` | built |
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| `hpa/pls_anchor_nes.npz` | The same for export signals. HPA gene DIAPH1 (Cytosol, Plasma membrane), crop `1608_B3_1_1` | built |
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| `hpa/proteome_aa_counts.json` | Residue counts over the 12,894 HPA proteins (7,940,784 residues), the proteome baseline the frequency analysis compares against | built |
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| `hpa/pls_reference_nls.csv` | The
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| `hpa/pls_reference_nes.csv` | The 320
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Hyperparameters for the CondenSeq models are set in `pipeline.py` in the Space and mirror
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`scripts/cell_fm_cs/evaluate_seq2img.sh` and
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| `hpa/pls_anchor_nls.npz` | The cell PLS generation conditions on for nuclear signals: `cell` `(3, 512, 512)` nucleus/ER/microtubules and `protein` `(1, 512, 512)`, float32 in [-1, 1]. HPA gene PPM1G (Nucleoplasm), crop `392_B9_1_11` | built |
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| `hpa/pls_anchor_nes.npz` | The same for export signals. HPA gene DIAPH1 (Cytosol, Plasma membrane), crop `1608_B3_1_1` | built |
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| `hpa/proteome_aa_counts.json` | Residue counts over the 12,894 HPA proteins (7,940,784 residues), the proteome baseline the frequency analysis compares against | built |
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| `hpa/pls_reference_nls.csv` | The 320 published NLS signals: 20 independent draws at each of 16 tail lengths, 10-25 aa | `output/hpa/pls_generation/nls` |
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| `hpa/pls_reference_nes.csv` | The same 320 for export signals | `output/hpa/pls_generation/nes` |
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Hyperparameters for the CondenSeq models are set in `pipeline.py` in the Space and mirror
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`scripts/cell_fm_cs/evaluate_seq2img.sh` and
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