pseudobulking on an AnnData object
-
Updated
Jun 17, 2026 - Python
#
pseudobulk
Here are 11 public repositories matching this topic...
Snakemake pipeline for scATAC-seq pseudobulk replicate creation
bioinformatics snakemake pipeline genomics genetics biology epigenetics cells atac-seq bam single-cell molecular-biology scatac-seq pseudobulk sinto
-
Updated
Apr 5, 2026 - Python
AD cerebrovascular BBB-leakage rehearsal: PMID-verified 85-gene leakage set + vascular pseudobulk DE on GSE148822 (703,915 nuclei) + 5-layer translational funnel (UniProt/Olink/SomaScan) | BBB渗漏基因集+血管差异预演管线
-
Updated
Sep 4, 2026 - Python
End-to-end reproducible R/Bioconductor pipeline for donor-aware paired single-cell RNA-seq analysis featuring QC, clustering, pseudobulk differential expression, functional enrichment, and automated reporting.
bioinformatics genomics rstats bioconductor transcriptomics reactome edger single-cell-rna-seq singlecellexperiment pseudobulk go-enrichment
-
Updated
Aug 7, 2026 - HTML
Donor-level astrocyte lncRNA analysis: a replicated Alzheimer's disease signature that is inverted in ALS (Brain Research revision, single-author, Hidenori Tani, Yokohama University of Pharmacy)
-
Updated
Aug 6, 2026 - Python
Archived version – superseded by updated dual implementation repository.
-
Updated
Jan 10, 2026 - Jupyter Notebook
Cross-cohort benchmarking of frozen Geneformer and expression pseudobulk for donor-level SLE classification
single-cell-rna-seq pseudobulk systemic-lupus-erythematosus geneformer cross-cohort-transfer bioinformatics-benchmark
-
Updated
Sep 7, 2026 - Python
Pseudobulk and metacell aggregation for single-cell RNA-seq (AnnData/scanpy + Seurat/R)
-
Updated
Jun 7, 2026 - Python
An auditor of pseudoreplication in single-cell RNA-seq differential expression. Phase 0: pre-registered measurement study.
python cli bioinformatics scrna-seq single-cell differential-expression anndata pseudobulk pseudoreplication
-
Updated
Sep 7, 2026 - Python
Scripts and data for used in the TE Aging Manuscript
-
Updated
Sep 23, 2025 - R
gSWITCH: A tool for identifying switch genes in biological network
bioinformatics time-series single-cell-rna-seq bulk-rna-seq gswitch pseudobulk switch-genes lineage-progression veriable-dependent-changes
-
Updated
Aug 11, 2026 - R
Add this topic to your repo
To associate your repository with the pseudobulk topic, visit your repo's landing page and select "manage topics."