This repo is aim to store some useful tools that I adopted/modified in analyzing single-cell omics data.
To perform spatial transcriptomic analysis, Seurat's vignette propose a way of creating the Seurat object. Rather than downloading the whole dataset, which can consist of massive image data, the cell-by-gene and cell-metadata tables can be used to construct the Seurat object (1.58 GB and 99 MB, respectively, sourced from the Human breast cancer data of Vizgen). This approach saves time and enables quicker exploratory studies, as it eliminates the requirement of downloading cumbersome image files.