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This package devises a supra-hexagonal map to self-organise the input data, offers scalable functionalities for post-analysing the map, and more importantly, allows for overlaying additional data for multilayer omics data comparisons.
Instead of a sliding window of N number of SNPs, which is often used to account for linkage disequilibrium (LD) [ 47], regions were defined based on distances between significant SNPs (<2 Mb) and LD for post-analyses.
For post data analyses purposes, we used an R library package methylKit35 and custom scripts implemented in R and Python.
When the ANOVA revealed a significant interaction or main effect, a Tukey-Kramer test was performed for post hoc analyses.
Limitations of this analysis are similar to those that have been well documented for post hoc analyses in general [24].
To assess changes in SSEP amplitude between blocks 1 and 2, SSEP N20-P25 amplitudes were tested with a repeated-measure ANOVA with group factor "subjects". Tukey's test was used for post hoc analyses.
For single-factor and two-way ANOVAs, Tukey's multiple comparisons test was used for post hoc analyses for between-group comparisons.
To assess significant differences in the behavior of both transgenic lines a one-way ANOVA with Bonferroni test for post hoc analyses was performed.
The Tukey test was performed for post hoc analyses.
Bonferroni test was used for post hoc analyses.
For post hoc analyses, we used pair-wise comparisons.
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CEO of Professional Science Editing for Scientists @ prosciediting.com