| --- |
| configs: |
| - config_name: conch_v15_10x |
| data_files: |
| - split: TCGA_ACC |
| path: data/TCGA-ACC/conch_v15/10x/*.parquet |
| - split: TCGA_BLCA |
| path: data/TCGA-BLCA/conch_v15/10x/*.parquet |
| - split: TCGA_BRCA |
| path: data/TCGA-BRCA/conch_v15/10x/*.parquet |
| - split: TCGA_CESC |
| path: data/TCGA-CESC/conch_v15/10x/*.parquet |
| - split: TCGA_CHOL |
| path: data/TCGA-CHOL/conch_v15/10x/*.parquet |
| - split: TCGA_COAD |
| path: data/TCGA-COAD/conch_v15/10x/*.parquet |
| - split: TCGA_DLBC |
| path: data/TCGA-DLBC/conch_v15/10x/*.parquet |
| - split: TCGA_ESCA |
| path: data/TCGA-ESCA/conch_v15/10x/*.parquet |
| - split: TCGA_GBM |
| path: data/TCGA-GBM/conch_v15/10x/*.parquet |
| - split: TCGA_HNSC |
| path: data/TCGA-HNSC/conch_v15/10x/*.parquet |
| - split: TCGA_KICH |
| path: data/TCGA-KICH/conch_v15/10x/*.parquet |
| - split: TCGA_KIRC |
| path: data/TCGA-KIRC/conch_v15/10x/*.parquet |
| - split: TCGA_KIRP |
| path: data/TCGA-KIRP/conch_v15/10x/*.parquet |
| - split: TCGA_LGG |
| path: data/TCGA-LGG/conch_v15/10x/*.parquet |
| - split: TCGA_LIHC |
| path: data/TCGA-LIHC/conch_v15/10x/*.parquet |
| - split: TCGA_LUAD |
| path: data/TCGA-LUAD/conch_v15/10x/*.parquet |
| - split: TCGA_LUSC |
| path: data/TCGA-LUSC/conch_v15/10x/*.parquet |
| - split: TCGA_MESO |
| path: data/TCGA-MESO/conch_v15/10x/*.parquet |
| - split: TCGA_OV |
| path: data/TCGA-OV/conch_v15/10x/*.parquet |
| - split: TCGA_PAAD |
| path: data/TCGA-PAAD/conch_v15/10x/*.parquet |
| - split: TCGA_PCPG |
| path: data/TCGA-PCPG/conch_v15/10x/*.parquet |
| - split: TCGA_PRAD |
| path: data/TCGA-PRAD/conch_v15/10x/*.parquet |
| - split: TCGA_READ |
| path: data/TCGA-READ/conch_v15/10x/*.parquet |
| - split: TCGA_SARC |
| path: data/TCGA-SARC/conch_v15/10x/*.parquet |
| - split: TCGA_SKCM |
| path: data/TCGA-SKCM/conch_v15/10x/*.parquet |
| - split: TCGA_STAD |
| path: data/TCGA-STAD/conch_v15/10x/*.parquet |
| - split: TCGA_TGCT |
| path: data/TCGA-TGCT/conch_v15/10x/*.parquet |
| - split: TCGA_THCA |
| path: data/TCGA-THCA/conch_v15/10x/*.parquet |
| - split: TCGA_THYM |
| path: data/TCGA-THYM/conch_v15/10x/*.parquet |
| - split: TCGA_UCEC |
| path: data/TCGA-UCEC/conch_v15/10x/*.parquet |
| - split: TCGA_UCS |
| path: data/TCGA-UCS/conch_v15/10x/*.parquet |
| - split: TCGA_UVM |
| path: data/TCGA-UVM/conch_v15/10x/*.parquet |
| --- |
| |
| # TCGA Pathology Feature Atlas |
|
|
| This repository stores pathology foundation-model embeddings as sharded Parquet files. |
|
|
| Physical layout: |
|
|
| ```text |
| data/{project_id}/{model_name}/{magnification}/part-*.parquet |
| ``` |
|
|
| Example: |
|
|
| ```text |
| data/TCGA-BRCA/conch_v15/20x/part-00000.parquet |
| ``` |
|
|
| Example streaming load: |
|
|
| ```python |
| from datasets import load_dataset |
| |
| ds = load_dataset("IUCompPath/CRAFT", name="conch_v15_20x", split="TCGA_BRCA", streaming=True) |
| ``` |
|
|
| Each row is a chunk of patch embeddings from one slide. |
|
|
