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The third analysis, the phylogenetic incompatibility test only rejected the null hypothesis of random mating for the inclusive datasets of VGIII and VGIV (Table 5).
To determine the extent of clonality and recombination in populations of different molecular types, we used three different tests of linkage disequilibrium, (i) the incongruence length difference/partition homogeneity test (ILD/PHT), (ii) two measures of index of association (IA and rBarD), and (iii) the phylogenetic incompatibility test.
Under a model of evolution that incorporates parameters specific to human mtDNA, including rate heterogeneity, population expansion, and ρ = 5.492, successful detection rates are limited to a range of 7−70% across tests with an acceptable level of false-positive results: the neighborhood similarity score incompatibility test performed best overall under these parameters.
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Somatic incompatibility tests further confirmed their heterogeneity.
Species were identified using haploid diploid pairings and genets were determined using intraspecific somatic incompatibility tests.
Products obtained for plasmids assigned to IncP-9 group by traditional incompatibility testing varied in size and restriction pattern suggesting diversity in the 'core' sequence among related replicons.
The incompatibility testing was carried out as described earlier [19].
Both the IA and the phylogenetic incompatibility tests were conducted using the program Multilocus version 1.0b [28].
Two common tests for assessing allelic associations were conducted here: the index of association (IA) and phylogenetic incompatibility tests [26].
Incompatibility tests were done as previously described [19], and confirmed that the pX1.0 plasmid was unable to propagate in the presence of the IncX1 plasmid, pOLA52.
We observed great variability across tests, with the incompatibility tests (PHI and NSS) having distributions strongly skewed to the right whereas the homoplasy test shows a left skewed distribution.
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