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HomoeoGWAS v2.2.0 adds publication-ready output figures (pip install homoeogwas==2.2.0).
Added: interact now ends by writing a genome-wide interaction scan, an evidence
figure for up to 12 significant groups (or the top three when none is significant), a calibration figure and, for smooth_pc4 runs,
a null-variance diagnostic, together with a figures.html page. fit draws the
subgenome PVE with bootstrap intervals, and homoeogwas follow-up draws
allele-combination means and accession-deletion robustness. homoeogwas plot
regenerates the figures of a finished fit or interact directory. Figures are
written as PDF, SVG and PNG; subgenomes are coloured by letter. The result JSON
records the bootstrap family minima, the per-edge component P values of reported
groups and the null-variance profile used by the figures.
No statistical code changed. Estimates, P values and decisions equal v2.1.4.
See the changelog for details.