### $Id: PBIB.q,v 1.1 1999/10/13 00:50:09 saikat Exp $ ### Analysis of the partially balanced incomplete blocked PBIB data options( contrasts = c(factor = "contr.SAS", ordered = "contr.poly") ) formula( PBIB ) names( PBIB ) sapply( PBIB, data.class ) fm1PBIB <- lme( response ~ Treatment, data = PBIB, random = ~ 1 | Block, method = "ML") summary( fm1PBIB ) plot( fm1PBIB, resid(.) ~ fitted(.) | Block ) plot( fm1PBIB, resid(.) ~ fitted(.) | Treatment, inner = ~ Block ) fm1RPBIB <- update( fm1PBIB, method = "REML" ) summary( fm1RPBIB ) # compare with output 1.7 pp. 24-25 ## Testing for significant fixed effects for Treatment involved re-fitting ## the ML fit and comparing with anova(). fm2PBIB <- update( fm1PBIB, response ~ 1 ) anova( fm1PBIB, fm2PBIB ) ## The p-value is considerably smaller than that for the F test in PROC MIXED
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