# Should do normalize before integration?

**URL:** <https://discourse.scverse.org/t/should-do-normalize-before-integration/387>\
**Category:** scanpy\
**Created:** [April 1, 2022, 7:10am UTC](https://discourse.scverse.org/t/should-do-normalize-before-integration/387 "2022-04-01T07:10:13Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![tlz4320](https://avatars.discourse-cdn.com/v4/letter/t/8c91f0/32.png) [@tlz4320](https://discourse.scverse.org/u/tlz4320)\
**Post date:** [April 1, 2022, 7:10am UTC](https://discourse.scverse.org/t/should-do-normalize-before-integration/387/1 "2022-04-01T07:10:13Z")

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Should do normalize before integration?  
Scanpy official example didn’t do normalize before integration but subset variable genes to do integration, which will finally get only little part of gene usable in future analysis.  
And I also found some one normalize data before integration and don’t subset variable genes.  
Therefore, I don’t know which one is the right way!

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**Author:** ![adamgayoso](https://yyz1.discourse-cdn.com/flex035/user_avatar/discourse.scverse.org/adamgayoso/32/100_2.png) [@adamgayoso](https://discourse.scverse.org/u/adamgayoso)\
**Post date:** [April 14, 2022, 5:12pm UTC](https://discourse.scverse.org/t/should-do-normalize-before-integration/387/2 "2022-04-14T17:12:39Z")

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Can you give a bit more detail about which integration method you’re using?