Software project ’miraculix’: Efficient computations with large genomic datasets

Authors

  • Martin Schlather
  • Alexander Freudenberg University of Mannheim
  • Guido Moerkotte University of Mannheim
  • Torsten Pook University of Wageningen
  • Jeremie Vandenplas University of Wageningen

Abstract

We present mathematical approaches for CPU accelerations to calculate matrix multiplications between a Single Nucleotide Polymorphism (SNP) matrix and another SNP matrix or a real-valued matrix. These accelerations are important in crucial time-relevant calculations of single-step evaluations and other methods in genetics. The presented algorithms are much faster than previous algorithms. The C-code is released as part of the software project ’miraculix’, which has been integrated into existing software such as MoBPS and MiXBLUP. We also discuss precision problems and missing SNP genotypes.

Downloads

Published

2023-12-13

Issue

No. 59 (2023): Proceedings of the 2023 Interbull Meeting

Section

Articles

License

Authors who publish with this journal agree to the following terms:

    1. Authors retain copyright and grant the journal right of first publication with the work simultaneously licensed under a Creative Commons Attribution License that allows others to share the work with an acknowledgement of the work's authorship and initial publication in this journal.

 

    1. Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgement of its initial publication in this journal.

 

    1. Authors are permitted and encouraged to post their work online (e.g., in institutional repositories or on their website) prior to and during the submission process, as it can lead to productive exchanges, as well as earlier and greater citation of published work (See The Effect of Open Access).