nicolas-lynn/norman-perturb
Norman 2019 CRISPRa K562 perturbation atlas CRISPRa (gene activation) in K562 chronic myeloid leukemia cells. Single-cell expression in log-normalized counts. Generated 2026-06-08 as one of three companion atlases (Norman, Replogle, VCC). File schema (each config / single-config repo) File Shape Description pseudobulks.h5ad (50, n_genes) 50 control pseudobulks (15 cells each, log-normalized means). Cell-type-specific baseline. coexpression.h5ad… See the full description on the dataset page: https://huggingface.co/datasets/nicolas-lynn/norman-perturb.
Random sample of perturbed single cells for end-to-end DE verification
Paired-pipeline DE p-values
Paired-pipeline DE BH-adjusted padj
Paired-pipeline DE (mean of 50 cells per side, source native units)
Recompute de_padj.parquet with paired-pipeline DE definition (unfiltered mean shift)
Recompute de_log2fc.parquet with paired-pipeline DE definition (unfiltered mean shift)
Recompute de_pvalue.parquet with paired-pipeline DE definition (unfiltered mean shift)
Recompute retained_perturbations_de.csv with paired-pipeline DE definition (unfiltered mean shift)
Expand DE to all 236 perts plus gold-tier scoring
Add 3000 random control single-cell samples (raw counts)
Add files using upload-large-folder tool
initial commit