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About the software

Conditions of use

For detailed information about the conditions of use and support, please visit the official wiki (http://nce.ads.uga.edu/wiki/doku.php). The programs are free for research use, but publications should acknowledge their use. Please contact the UGA faculty members (see http://nce.ads.uga.edu/ for contact information).

Bug report and support

Bug reports are welcome. Please contact one of the developers at UGA or other institutions, or post your report on Groups.io (https://groups.io/g/blupf90). Support may be limited on Groups.io because it is provided on a volunteer basis. Note that we have moved from Yahoo Groups to Groups.io due to changes in Yahoo’s policy. If you need full support for the programs, please consider contacting our team.

Citations

You can cite the following publication when you use the BLUPF90 programs in your study. Please note that this manual is occasionally updated, but you may cite the version published in 2014; some users may instead cite a newer version.

• Misztal, I., S. Tsuruta, D. A. L. Lourenco, Y. Masuda, I. Aguilar, A. Legarra, Z. Vitezica. 2014. Manual for BLUPF90 family programs. University of Georgia. http://nce.ads.uga.edu/wiki/doku.php?id=documentation (This is the standard reference usually cited by users.)

Alternatively, the UGA team usually presents its developments in BLUPF90 at the WCGALP (World Congress on Genetics Applied to Livestock Production) conference and publishes proceedings every four years. The latest conference was held in 2026, and its proceedings are available. Many people like to refer to the proceedings when citing the BLUPF90 programs, although the older proceedings are still cited in many publications.

• Lourenco, D. A. L., Bermann, M., Aguilar, I., Legarra, A., Tsuruta, S., and Misztal, I. 2026. New features and developments in the BLUPF90 software suite. World Congress on Genetics Applied to Livestock Production Digital Archive 2026(1): 2284867. doi: https://doi.org/10.31274/wcgalp.23619

If you cite this tutorial in your publication, please use the following reference in addition to the manual or the proceedings listed above (or the other papers shown below). Please also note that you may cite the original version of the tutorial published in 2018, although it has been revised several times in the past and may be updated again in the future.

• Masuda, Y. 2018. Introduction to BLUPF90 suite programs. University of Georgia. http://nce.ads.uga.edu/wiki/doku.php?id=documentation

If you need to cite a particular feature of the BLUPF90 programs, the following references may be useful. Please be aware that new articles on this topic may be published in the future, and you are encouraged to cite the most recent one in your publications.

• Lourenco, D. A. L., Tsuruta, S., Masuda, Y., Bermann, M., Legarra, A., Misztal, I. Recent updates in the BLUPF90 software suite. In: Proceedings of the 12th World Congress on Genetics Applied to Livestock Production; 2022 July 3-8; Rotterdam.

• Lourenco, D. A. L., Legarra, A., Tsuruta, S., Masuda, Y., Aguilar, A., Misztal, I. 2020. SingleStep Genomic Evaluations from Theory to Practice: Using SNP Chips and Sequence Data in BLUPF90. Genes, 11:790. https://doi.org/10.3390/genes11070790

The following references are older, but they may still be useful for referring to specific features of the program.

• Aguilar, I., S. Tsuruta, Y. Masuda, D. A. L. Lourenco, A. Legarra, I. Misztal. 2018. BLUPF90 suite of programs for animal breeding with focus on genomics. No. 11.751. The 11th World Congress of Genetics Applied to Livestock Production, Auckland, New Zealand. (This is the most recent reference for BLUPF90 programs focusing on genomic analysis.)

• Aguilar, I., I. Misztal, S. Tsuruta, A. Legarra, H. Wang. 2014. PREGSF90 - POSTGSF90: Computational Tools for the Implementation of Single-step Genomic Selection and Genome-wide Association with Ungenotyped Individuals in BLUPF90 Programs. The 10th World Congress of Genetics Applied to Livestock Production, Vancouver, BC, Canada. (This can be cited if you used a combination of PREGSF90 and POSTGSF90 to perform single-step GWAS.)

• Misztal, I., S. Tsuruta, T. Strabel, B. Auvray, T. Druet, D. H. Lee. 2002. BLUPF90 and related programs (BGF90). Communication No. 28-07. The 7th World Congress on Genetics Applied to Livestock Production, August 19–23, 2002, Montpellier, France. (This was widely cited in the past, but is now considered outdated. Use this reference only if you have a specific reason.)

The following reference is cited in the technical descriptions in the subsequent chapters:

• Misztal, I. 2026. Computational techniques in animal breeding. Course Note. University of Georgia.

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