Resource Structure Documentation ## Overview

The scHNDB Resource section provides organized access to processed single-cell RNA-seq and spatial transcriptomics data through three main browsing methods. ## Directory Structure ``` content/resource/ ├── resource.md # Main landing page with overview ├── index.md # Hugo page configuration ├── Dataset/ # Sample/Dataset category │ └── _index.md # Dataset category index ├── Tissue type/ # Tissue type category │ ├── _index.md # Tissue type index │ ├── Tumor.md # Tumor tissue data │ ├── Normal.md # Normal tissue data │ ├── OPMD.md # OPMD tissue data │ ├── PBMC.md # PBMC data │ ├── Lymph_node.md # Lymph node data │ └── Cell_line.md # Cell line data └── Celltype/ # Cell type category ├── _index.md # Cell type index ├── T_cell.md # T cell data ├── NK_cell.md # NK cell data ├── B_Plasma_cell.md # B/Plasma cell data ├── Myeloid_cell.md # Myeloid cell data ├── Endothelial_cell.md # Endothelial cell data ├── Fibroblast.md # Fibroblast data └── Epithelial_cell.md # Epithelial cell data

- Organizes data by individual sample datasets
- Location: `/resource/dataset/`
- Ready for adding specific dataset pages as needed ### 2. Tissue Type (组织类别)
- 6 tissue types available: - Tumor (肿瘤组织) - Normal (正常组织) - OPMD (口腔潜在恶性疾病) - PBMC (外周血单核细胞) - Lymph node (淋巴结) - Cell line (细胞系) ### 3. Cell Type (细胞类别)
- 7 major cell types available: - T Cell (T细胞) - NK Cell (NK细胞) - B/Plasma Cell (B细胞/浆细胞) - Myeloid Cell (髓系细胞) - Endothelial Cell (内皮细胞) - Fibroblast (成纤维细胞) - Epithelial Cell (上皮细胞) ## File Format Each category page includes download links for four file types:
1. **Barcode file** (`*_barcodes.tsv.gz`)
2. **Feature file** (`*_features.tsv.gz`)
3. **Matrix file** (`*_matrix.mtx.gz`)
4. **Metadata file** (`*_metadata.csv.gz`) ## Next Steps ### To Complete the Implementation: 1. **Update GitHub URLs**: - Replace `https://github.com/YOUR_REPO/releases/download/v1.0/` with your actual GitHub repository URL - Create GitHub releases with the actual data files 2. **Update File Metadata**: - Fill in actual file sizes for each download - Update cell counts and sample counts - Add specific dataset information 3. **Add Dataset Pages**: - Create individual dataset pages under `Dataset/` directory - Each dataset should follow the same template as tissue/cell type pages 4. **Optional Enhancements**: - Add preview images or plots for each category - Include data quality metrics - Add citation information - Create batch download options ## Template for New Pages When adding new dataset pages, use this structure: ```markdown
---
title: "Dataset Name"
date: 2025-10-10
layout: single
categories: ["Dataset"] # or ["Tissue type"] or ["Celltype"]
--- ## Dataset Name - Processed Data Description of the dataset. ### Dataset Information - **Type**: [Tissue/Cell type]
- **Data Type**: scRNA-seq / ST-seq
- **Total Cells**: [number]
- **Sample Count**: [number] --- ### Download Files #### Barcode file
- **File**: `dataset_barcodes.tsv.gz`
- **Size**: [size]
- **Format**: TSV.GZ
- **Description**: Contains cell barcode information
- [Download from GitHub](URL) [... repeat for feature, matrix, and metadata files ...]
``` ## Notes - All files are compatible with Seurat (R) and Scanpy (Python)
- Data format follows 10X Genomics standard
- GitHub download links need to be configured before deployment
- Hugo will automatically generate category pages and navigation