| # TRACERx Expression Data | |
| VST-normalized gene expression data from the TRACERx lung cancer cohort. | |
| ## Contents | |
| - `tracerx_vst_counts.parquet`: VST-normalized expression matrix (Parquet format) | |
| - Rows: 20136 genes | |
| - Columns: 1051 samples | |
| - Size: 106.0 MB | |
| ## Usage | |
| ```python | |
| from huggingface_hub import hf_hub_download | |
| import pandas as pd | |
| # Download the expression data (Parquet - faster) | |
| local_path = hf_hub_download( | |
| repo_id="jruffle/tracerx_expression_data", | |
| filename="tracerx_vst_counts.parquet", | |
| repo_type="dataset" | |
| ) | |
| # Load the data | |
| expression_df = pd.read_parquet(local_path) | |
| ``` | |
| ## Data Format | |
| - Index: Gene symbols (gene_id) | |
| - Columns: Sample IDs | |
| - Values: VST-normalized expression values | |
| ## Why Parquet? | |
| Parquet format provides: | |
| - ~3x smaller file size than CSV | |
| - ~10-100x faster loading times | |
| - Native pandas support | |
| ## License | |
| This data is provided for research purposes as part of the CRUK Datathon 2025. | |