# Dwi2fod with FA as mask

**URL:** https://community.mrtrix.org/t/dwi2fod-with-fa-as-mask/2614
**Category:** Uncategorized
**Created:** [June 25, 2019, 8:20pm UTC](https://community.mrtrix.org/t/dwi2fod-with-fa-as-mask/2614 "2019-06-25T20:20:29Z")
**Posts on this page:** 1
**Showing post:** 7

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### Author: ![ThijsDhollander](https://community.mrtrix.org/user_avatar/community.mrtrix.org/thijsdhollander/32/1617_2.png) [@ThijsDhollander](https://community.mrtrix.org/u/ThijsDhollander)
#### Post date: [June 28, 2019, 4:02am UTC](https://community.mrtrix.org/t/dwi2fod-with-fa-as-mask/2614/7 "2019-06-28T04:02:50Z")

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For reference, other considerations to be careful about (e.g. with `mtnormalise` and other steps in mind): [FBA Single Shell - High GM FOD values](https://community.mrtrix.org/t/fba-single-shell-high-gm-fod-values/1746/5)

It might not really have been mentioned before as well, but also be careful what masks you give to `mtnormalise` if you’d run 2- or even 3-tissue CSD only in an FA\>… mask. You may cut out most if not all of the areas that have contributions of the other tissue types (and more, e.g. introduce holes). That’s going to be a problem that’ll undermine `mtnormalise`'s accuracy, potentially a lot. `mtnormalise` thrives upon the info of all tissue types to do its job well (it’s more complicated than that; but it’s the simplest way I can put it).

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