BLUPF90

The BLUPF90 family of programs is a statistical software package used in quantitative genetics for animal and plant breeding.

{{Cite journal |volume = 20| pages = 33–42| last = Misztal| first = Ignacy| title = Complex Models, More Data: Simpler Programming?| journal = Interbull Bulletin| date = 1999}}

{{Cite conference |conference = 7th World Congress on Genetics Applied to Livestock Production| last1 = Misztal| first1 = I| last2 = Tsuruta| first2 = S| last3 = Strabel| first3 = T| last4 = Auvray| first4 = B| last5 = Druet| first5 = T| last6 = Lee| first6 = D H| title = BLUPF90 and related programs (BGF90)| location = Montpellier, France| date = 2002}}

It can fit mixed models using restricted maximum likelihood as well as Gibbs sampling to estimate variance components, and predict breeding values via best linear unbiased prediction (BLUP).

Coded in Fortran, it can perform genomic selection on hundreds of thousands of genotyped individuals.

{{Cite conference | publisher = American Society of Animal Science, Champaign, IL| conference = 10th World Congress of Genetics Applied to Livestock Production| last1 = Aguilar| first1 = I| last2 = Misztal| first2 = I| last3 = Tsuruta| first3 = S| last4 = Legarra| first4 = A| last5 = Wang| first5 = H| title = PREGSF90 – POSTGSF90: Computational Tools for the Implementation of Single-step Genomic Selection and Genome -wide Association with Ungenotyped Individuals in BLUPF90 Programs| date = 2014 |url = https://www.asas.org/docs/default-source/wcgalp-posters/680_paper_9756_manuscript_1666_0.pdf?sfvrsn=2}}

Compiled versions of BLUPF90 are freely available for research, and can be used on Linux, Microsoft Windows and Mac OS X.[http://nce.ads.uga.edu/software/ http://nce.ads.uga.edu/software/][http://nce.ads.uga.edu/wiki/doku.php?id=start http://nce.ads.uga.edu/wiki/doku.php?id=start] There also exists an add-on to R (programming language).[https://famuvie.github.io/breedR/ https://famuvie.github.io/breedR/]