Pinned Repositories
cell2location
Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
spacexr
Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics
Build-Gene-Isoform-Reference-for-10X
Script for modifying 10X standard reference gtf, to view each individual transcript in a gene as individual genes, thereby enable isoform detection using 10X alignment pipeline. However, the limitation of 10X short-read sequencing should be noted when interpreting the result.
mito-RNAediting
Seurat-add-ons
Functions to assist seurat pipeline analysis
ComplexHeatmap
Make Complex Heatmaps
seurat
R toolkit for single cell genomics
seurat-wrappers
Community-provided extensions to Seurat
installr
Functions for installing softwares from within R
scib
Benchmarking analysis of data integration tools
Jiayi-Zheng's Repositories
Jiayi-Zheng/Build-Gene-Isoform-Reference-for-10X
Script for modifying 10X standard reference gtf, to view each individual transcript in a gene as individual genes, thereby enable isoform detection using 10X alignment pipeline. However, the limitation of 10X short-read sequencing should be noted when interpreting the result.
Jiayi-Zheng/mito-RNAediting
Jiayi-Zheng/Seurat-add-ons
Functions to assist seurat pipeline analysis