The best replacement for manova is anova.

The best alternatives to manova are rated as following:
★★★★★  anova
★★★★  mancova
★★  multiple regression
★  repeated measures anova
★  multiple anovas
★  multiple anova
★  ancova
★  two way anova
★  factorial anova
★  multivariate regression
★  anova when to use
  repeated measures
  discriminant analysis
  2 way anova
  mixed model

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