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license: other
license_name: penn-license
license_link: LICENSE
viewer: false
tags:
- SpatialTranscriptomics
- VirtualPrediction
---
**AURORA (Architecture Unveiling through RNA Omics and Routine Histology Analysis)**
- `trained_models`: Pretrained AURORA models for LUAD, KIRC and BRCA.
- `*.pth`: model weight;
- `*.json`: parameters for the AURORA model;
- `*.csv`: supporting information (cell types, gene names and normalizing factors) used by `*.json`.
- `predictions_112um`: Virtual spatial transcriptomics at 112 μm * 112 μm by AURORA of TCGA-LUAD, TCGA-KIRC, TCGA-BRCA and BRCA pre-chemotherapy (https://doi.org/10.1038/s41586-021-04278-5) samples.
- `*.h5` file: virtual spatial transcriptomics
- `pos`: spatial coordinates of patches (224 pixels * 224 pixels). This is the coordinates of the upper left corner of each patch.
- `gene_exp`: gene expressions. The names of the genes are stored in `genes.csv`.
- `celltype_prop`: cell type proportions in **log** scales. The name of the cell types are stored in `celltypes.csv`.
- `genes.csv`: names of predicted genes.
- `celltypes.csv`: names of predicted cell types. |