BOLT-LMMThe BOLT-LMM software package currently consists of two main algorithms, the BOLT-LMM algorithm for mixed model association testing, and the BOLT-REML algorithm for variance components analysis (i.e., partitioning of SNP-heritability and estimation of genetic correlations). We recommend BOLT-LMM for analyses of human genetic data sets containing more than 5,000 samples. The algorithms used in BOLT-LMM rely on approximations that hold only at large sample sizes and have been tested only in human data sets. For analyses of fewer than 5,000 samples, we recommend the GCTA or GEMMA software. We also note that BOLT-LMM association test statistics are valid for quantitative traits and for (reasonably) balanced case-control traits. For unbalanced case-control traits, we recommend the recent SAIGE software.
For more information visit the BOLT-LMM website.
These versions of BOLT-LMM are available on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.