Upload README.md with huggingface_hub

README.md

@@ -31,6 +31,7 @@ Checkpoints of CELL-FM.
 | `opencell/vs_anchor_nucleus.npy` | The nucleus every OpenCell generation is conditioned on: `(1, 256, 256)` float32 in [-1, 1]. Gene ATG7, crop `CID001813_FID00035838_proj_11` — bit-for-bit the conditioning channel of the published offline run |
 | `opencell/vs_genes.csv` | OpenCell's 1,311 genes: name, protein name, UniProt accession, Ensembl id, localization annotation and sequence. The metadata table minus its image paths |
 | `opencell/vs_reference_cells.npz` | Four proteins in two matched pairs (POLR1A/SNRPF nuclear, LSM14A/DDX6 both P-body), each with one real OpenCell crop as a `(nucleus, protein)` float16 pair — the image shown beside the generated one |
+| `opencell/vs_umap_embedding.npz` | 2-D UMAP of all 93,510 virtual-staining samples (1,276 proteins) in the dataset [`BoHuangLab/CELL-FM`](https://huggingface.co/datasets/BoHuangLab/CELL-FM): `embeddings` (93510, 2) float32, `labels` (OpenCell localization, `Multilocalizing` when there are several) and `gene_names`. Images embedded with `opencell/vit.bin`, then UMAP with 15 neighbours, min_dist 0.3, seed 42 — the map in the Space's Virtual OpenCell tab |
 | `hpa/anchor_cell.npy` | The fixed cell every NLS-screening image is conditioned on: `(3, 256, 256)` float32 in [-1, 1], channels nucleus, ER, microtubules. HPA gene H3C13, cell crop `1194_B2_2_4` |
 | `hpa/anchor_masks.npz` | Two 256x256 boolean masks over that cell, `nucleus` and `cell`; cytoplasm is `cell & ~nucleus` |
 | `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` |