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To correct for testing multiple hypotheses, we also conducted permutation testing (applying 1000 permutations) using software available in PLINK.
The SGoF multitest adjustment [ 97] was used to correct for testing multiple hypotheses using the freeware software SGoF http://webs.uvigo.es/acraaj/SGoF.htm.es/acraaj/SGoF.htm
The Bonferroni method was used to correct for testing of 81 clades.
Assuming the need to correct for testing of all 163 IBD loci against 22 dominant taxa (3,586 tests; adjusted significance threshold = 1.39 × 10-5), woulduld need at least 3,729 samples to power the full analysis (R 'pwr' package power calculation for a linear model with 19 numerator degrees of freedom).
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Parametric data were analyzed by ANOVA with subsequent Games-Howell post-hoc test to correct for multiple testing or using the Welch test.
We use the Bonferroni correction to correct for multiple testing.
To correct for multiple testing (98 co-modules tested) the Bonferroni correction was applied.
Unless otherwise indicated groups of data were compared using one-way analysis of variance (ANOVA) followed by Bonferroni post-hoc test to correct for multiple testing.
To compare treatments, we used ANOVA followed by a Tukey test to correct for multiple testing.
We performed a permutation test to correct for multiple testing of allelic and haplotype associations using Haploview Barrettt et al. 2005).
However, since many nodes in the dendrograms are tested, we need to correct for multiple testing.
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