# Analyse sub-sections of a spatial visium slide

**URL:** <https://discourse.scverse.org/t/analyse-sub-sections-of-a-spatial-visium-slide/1361>\
**Category:** scanpy\
**Tags:** scvi\
**Created:** [April 28, 2023, 6:08am UTC](https://discourse.scverse.org/t/analyse-sub-sections-of-a-spatial-visium-slide/1361 "2023-04-28T06:08:16Z")\
**Posts on this page:** 1\
**Page:** 1

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**Author:** ![cell\_kc](https://avatars.discourse-cdn.com/v4/letter/c/46a35a/32.png) [@cell\_kc](https://discourse.scverse.org/u/cell_kc)\
**Post date:** [April 28, 2023, 6:08am UTC](https://discourse.scverse.org/t/analyse-sub-sections-of-a-spatial-visium-slide/1361/1 "2023-04-28T06:08:16Z")

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I am analysing a 10x Visium spatial dataset than contains 4 images and the corresponding outputs from Space Ranger. I would like to analyse and compare the DE genes from 2 areas of the **same image**. The data is a slice from mouse colon and some of the colon is tumour and some not - based on the pathologists drawing (see below the area labelled ‘T’). What package or method would be best suited to this task? Thanks

![Visium_Mouse_Patholo](https://canada1.discourse-cdn.com/flex035/uploads/forum11/original/1X/7a8a7f29cc987bb7b1f5a7f465ba3fc229db0696.png)