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ALTree is used to perform homogeneity tests to detect differences in enrichment or depletion of affected or unaffected individuals between clades in the phylogenetic tree.
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We first performed homogeneity of slopes analyses, and whenever the factor × covariate interaction was not significant (significance level set at P<0.01 due to large sample sizes), it was deleted from the model.
We also performed homogeneity test and logistic regression analysis to estimate and compare the risks between the strata and interactions between two factors, respectively.
ALTree standing for Association detection and Localization of susceptibility sites using haplotype phylogenetic Trees is an algorithm used to perform nested homogeneity tests to compare distributions of affected and unaffected individuals in the different clades of a given phylogenetic tree.
To compare the variability in migrations between the two groups we performed a homogeneity test (Levene's test).
Our statistical analyses involved two approaches: (a) we first performed a homogeneity of slopes regression analysis with number of partners as response variable and treatment (UV-blocked vs. controls), number of observations of a male and its interaction with treatment, and male snout-vent length as covariate.
To assess whether these heritabilities were indeed different we also performed a homogeneity of slopes test, which demonstrated significant effects of both main effects (TRFparents, F = 26.55, p<0.0001; Sex, F = 4.84, p = 0.030, dfs = 1) and their interaction (Parental TRF x Sex, F = 4.51, p = 0.036; Fig. 2 a, b).
The Friedman test was performed for homogeneity.
Distribution of the data was assessed by a histogram and a Bartlett test was performed for homogeneity of variances.
To test whether datasets can be combined, we performed partition homogeneity tests in PAUP with 10,000 replications.
We performed the homogeneity analysis on the prostate data set considering the two groups of lethal and indolent patients.
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