Kidney spatial in situ sequencing with dRNA HybISS by Cartana

This repo documented the codes for reproducing the data in our dRNA HybISS manuscript

To run the codes in Julia, python and R, the following tools need to be pre-installed in your workstation.

CellScopes.jl:https://github.com/TheHumphreysLab/CellScopes.jl
Cellpose:https://github.com/MouseLand/cellpose
Baysor:https://github.com/kharchenkolab/Baysor
Seurat:https://github.com/satijalab/seurat
SpaGCN:https://github.com/jianhuupenn/SpaGCN
Tangram:https://github.com/broadinstitute/Tangram
Scanpy:https://github.com/scverse/scanpy
SpaGE:https://github.com/tabdelaal/SpaGE
gimVI:https://github.com/scverse/scvi-tools
STdeconvolve: https://github.com/JEFworks-Lab/STdeconvolve
TACCO: https://github.com/simonwm/tacco
RCTD: https://github.com/dmcable/spacexr
Spotlight: https://github.com/MarcElosua/SPOTlight