Firstable, what kind of specie do you have? Acording with, then you need to know the population estructure and mainly, the types of mating that already you have in the population in order to identified the most dangerous. In adition, to organize next generation planning: random mating? restricted mating? Do you know in what extent inbreeding depression is affecting the population? Other aspects are so important like size of female group by male, but effective population size (Ne) should be changed. A diversity analysis should be suitable just to see heterocigocity and homocigocity by F statistics to support the planing process. These are some ideas only.

Understanding your population cannot be opened, there are first basic principles, namely, increasing as far as possible your number of reproducers, equilibrate your sex ratio between reproducers, as well as the number of offspring per reproducer.

Then there are numerous strategies, with also software available, that can help you on the mating choices. See for instance Ojeda-Marin et al. 2021.

Equalizing sex ratio (1:1 mating) and equalizing family size is important. Also, you can use pedigreed mating: Each male leaves 1 son and each female leaves 1 daughter for the subsequent generation. If a male or female spawns more than once they still leave only 1. They can actually leave more than 1 if all leave equal numbers. If you use 1:1 mating with pedigreed mating, effective breeding number doubles. Also, you should use DNA fingerprinting to avoid the mating of full-sibs, and half-sibs. If you can produce family trees via DNA fingerprinting, by limiting the mating of relatives to second cousins (or less), inbreeding will never exceed 2%.

https://issuu.com/aquafeed.com/docs/hatchery_feed___management_vol_8_issue_4__2020/15