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At more lenient thresholds (3 20% of test examples being called positive), PhyloP-SCORE outperforms the other three approaches.
No activations were observed in any regions correlating with the variance of the "evidence" on the irrelevant dimension (UVi), although positive correlations with the irrelevant variance were observed in the visual cortex at very lenient thresholds (P < 0.005 uncorrected).
The number of components (Fig. 8A) increases from few very weakly connected components at very lenient thresholds to a larger number at more stringent thresholds in both G NC and G S. In G NC, the component count is stable for thresholds roughly from 0.3 to 0.7, illustrating the robustness of Neighborhood Correlation.
The accuracy of the predictions made by these four measures of conservation are shown in Figure 3. PhastCons, the only measure that integrates signals from several consecutive positions, performs best for highly confident predictions (top 5% predicted as positive) but its accuracy decreases and quickly becomes worse than the other approaches at slightly more lenient thresholds.
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The contrast intrinsic intra-item binding did not reveal any significant activation, even at a very lenient threshold of p<0.1.
This interaction demonstrated differential activity in the left insula (BA13) (x = −41 y = −4 z = 10) at a more lenient threshold (p<0.01) (Figure 3a).
The implications of using this lenient threshold depend on what result is being considered and are described in each case below.
Also, based on anatomical pre-defined hypotheses (frontopolar cortex and medial temporal lobe (MTL)) as well as low number of subjects and events (predictive of low statistical power), we also used the lenient threshold of p<.005.
Although the activity of the intraparietal sulcus was revealed at a lenient threshold and would thus need further investigation, its function of information accumulation would fit well within the present construct of PM.
Interestingly, this was the only time point of the task where a frontopolar (BA 10) area was detected, however at a lenient threshold, which needs to be confirmed with other experiments (see Fig. 3C and Table S2, contrast between Switching and End events).
All three methods indicate a stronger LSMA/LSMC correlation during right hand movement, and a stronger LSMA/RSMC correlation during left hand movement, based on the 90% confidence intervals (though these comparisons will show some false positives because of the lenient threshold and number of tests).
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com