hiha_100k

A dataset of 100k human immune health atlas samples from the Human Immune Health Atlas. Originally published in Gong Q, Sharma M, Kuan EL, Glass MC, Chander A, Singh M, et al. Longitudinal Multi-omic Immune Profiling Reveals Age-Related Immune Cell Dynamics in Healthy Adults. bioRxiv. 2024. p. 2024.09.10.612119. doi:10.1101/2024.09.10.612119 ## Processed AnnData Objects This deposit contains processed AnnData objects (single-cell genomics data) that were processed using the `adata_hf_datasets` Python package. The files are in HDF5 (.h5ad) or Zarr format and contain preprocessed gene expression data along with computed embeddings. ### Available Embeddings (.obsm layers) The AnnData objects contain the following embedding layers: `X_pca`, `X_scvi_fm`, `X_geneformer`, `X_gs10k`, `X_geneformer-v1`, `X_cw-geneformer`. ## Related Resources - **HuggingFace Dataset**: [jo-mengr/hiha_100k_single_no_caption](https://huggingface.co/datasets/jo-mengr/hiha_100k_single_no_caption)- **Raw Data Source**: [Download](https://allenimmunology.org/public/publication/download/84792154-cdfb-42d0-8e42-39e210e980b4/filesets/568ad40c-516a-4646-9426-bdcd7029c1f5/human_immune_health_atlas_full.h5ad) ## Package Information These files were processed using the `adata_hf_datasets` package. For more information about the processing pipeline, please refer to the associated HuggingFace dataset repository.