The variance components method implemented in SOLAR [http://solar.sfbrgenetics.org/] was then used to calculate multipoint LOD scores across the genome at 1 cM intervals for the three cannabis phenotypes. All traits were analyzed under a continuous trait model rather than using the latent threshold model as the former approach provided a more conservative estimate of linkage in the present study. A LOD threshold of 3.0 was used to identify loci that provided evidence for linkage, and a LOD threshold of 2.0 was used to identify loci yielding suggestive evidence of linkage. For each reported linkage peak, simulation analyses were then conducted using SOLAR to derive nominal p-values. Specifically, a genetic locus was simulated under the null hypothesis of no linkage across 20,000 trials, and the distribution of LOD scores across those trials was used to derive a nominal p-value for the observed LOD score.
