seurat-v5

Seurat v5 compatible HDF5 converter for single-cell data — h5ad, h5Seurat, h5mu, Loom with full spatial data support

Annotated Seurat v5 walkthrough of the 10x Genomics PBMC 3k dataset: QC, normalization, feature selection, PCA, graph-based clustering, UMAP, marker discovery, and annotation of 2,638 cells into 8 immune populations. Each step documents parameter rationale and common failure modes. R 4.4.2 / Seurat 5.5.1.

Objective PCA dimensionality & comparative clustering for Seurat

Single-cell transcriptomics analyses from pre-processing to downstream analyses.

NeuMapp Explorer: Interactive platform (R Shiny & Python Engine) for neutrophil transcriptomic architecture, trajectory inference, and spatial compartmentalization.

Bachelor Capstone Thesis Project