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method = "blmm": an ALDEx3-specific approximate
mixed-effects engine using a batched profiled REML anchor fit per
feature, draw-specific local covariance updates, and exact conditional
GLS fixed-effect solves. Falls back to lme4 for features
where the approximation cannot be evaluated cleanly.n.cores) for
method = "blmm" and method = "lme4".lme4.aldex.plot() for pairwise ALDEx3 model contrasts,
with volcano, effect, MA, and waterfall plot modes.aldex.effect() for ALDEx2-inspired effect
diagnostics on a single binary ALDEx3 contrast. The function reports the
mean contrast estimate, mean pooled within-group standard deviation,
mean Cohen’s d, and an ALDEx2-style directional overlap
diagnostic.cohensd() documentation and preserved its
legacy return value: a feature by Monte Carlo sample matrix of Cohen’s d
draws.logComp + logScale, and clearly report that they require
stored Monte Carlo arrays.gut_crohns_data is available during vignette rebuilds.These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.