How to keep track of on’yomi vs kun’yomi?

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Here’s some data I pulled from the API recently:

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number of kanji by WK primary reading type:

1718 on’yomi
306 kun’yomi
3 nanori

So whilst kanji reviews do predominantly ask for on’yomi, it’s by no means uncommon for WK to teach a different reading. It often does this when the on’yomi is one you are unlikely to meet except in very advanced study.