Here is a test data set and code. I am including the data set after the
code and discussion to make reading easier. Apologies for the size of the
data set, but my problem occurs when there are a lot of Z
variables. Thanks for your time.
# Enter data below
# Sample code
library(lme4)
mb<- length(unique(testsamp$WYear))
# Create the formula for the set of identically distributed random effects
Zs<- paste("Z",2:(mb-1)),sep="")
Trendformula <-as.formula(paste("LogY ~ WYear + (1+WYear|Site) +
(1|",
randommodel=paste(paste(Zs,collapse="+"), ")")))
fittest<-lmer(Trendformula, data = testsamp)
summary(fittest)
# Here I get an error because the name of the random effect is too long to
print
# in the random effects output (I think).
# The error message is: Error in names(bars) <- unlist(lapply(bars,
function(x)
# deparse(x[[3]]))) : 'names' attribute [3] must be the same length as
the
vector [2]
# However, when fewer Z variables are used in the random portion of the model,
# there is no error.
# Using only Z2 + … + Z9 for the random intercept
Zs2<- paste("Z",2:9,sep="")
Trendformula2 <-as.formula(paste("LogY ~ WYear + (1+WYear|Site) +
(1|",
randommodel=paste(paste(Zs2,collapse="+"), ")")))
fittest2<-lmer(Trendformula2, data = testsamp)
summary(fittest2)
# Is there a way to either name the set of iid random effects something
else or
# to define a random variable that could be used in the model to create a
# random intercept?
# I have had some success in lme, but it would be helpful for my simulation
if I
# could conduct this analysis with lmer. My model in lme is not correctly
# estimating one of the variance components (random Site intercept).
# I am using:
detach(package:lme4)
library(nlme)
random.model.lme
<-as.formula(paste("~-1+",paste(paste("Z",2:(mb-1),sep=""),collapse="+")))
n<-dim(testsamp)[1]
testsampgroup <- rep(1,n)
testsamp.lme <-cbind(testsamp,testsampgroup)
testgroupSamp<- groupedData(LogY ~ WYearCen|testsampgroup, inner= ~Site,
data= data.frame(testsamp.lme))
fittest3<-lme(LogY ~ WYearCen, random=
pdBlocked(list(pdIdent(~-1+WYearCen:as.factor(Site)),
pdIdent(~-1+as.factor(Site)), pdIdent(random.model.lme))),data= testgroupSamp)
summary(fittest3)
VarCorr(fittest3)
# Data
testsamp <-
structure(list(Year = c(2008, 2008, 2008, 2008, 2008, 2008, 2008,
2009, 2009, 2009, 2009, 2009, 2009, 2009, 2010, 2010, 2010, 2010,
2010, 2010, 2010, 2011, 2011, 2011, 2011, 2011, 2011, 2011, 2012,
2012, 2012, 2012, 2012, 2012, 2012, 2013, 2013, 2013, 2013, 2013,
2013, 2013, 2014, 2014, 2014, 2014, 2014, 2014, 2014, 2015, 2015,
2015, 2015, 2015, 2015, 2015, 2016, 2016, 2016, 2016, 2016, 2016,
2016, 2017, 2017, 2017, 2017, 2017, 2017, 2017, 2018, 2018, 2018,
2018, 2018, 2018, 2018, 2019, 2019, 2019, 2019, 2019, 2019, 2019,
2020, 2020, 2020, 2020, 2020, 2020, 2020, 2021, 2021, 2021, 2021,
2021, 2021, 2021, 2022, 2022, 2022, 2022, 2022, 2022, 2022),
WYear = c(0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 2, 2,
2, 2, 2, 2, 2, 3, 3, 3, 3, 3, 3, 3, 4, 4, 4, 4, 4, 4, 4,
5, 5, 5, 5, 5, 5, 5, 6, 6, 6, 6, 6, 6, 6, 7, 7, 7, 7, 7,
7, 7, 8, 8, 8, 8, 8, 8, 8, 9, 9, 9, 9, 9, 9, 9, 10, 10, 10,
10, 10, 10, 10, 11, 11, 11, 11, 11, 11, 11, 12, 12, 12, 12,
12, 12, 12, 13, 13, 13, 13, 13, 13, 13, 14, 14, 14, 14, 14,
14, 14), Site = c(4, 18, 26, 40, 67, 75, 94, 4, 18, 26, 40,
67, 75, 94, 4, 18, 26, 40, 67, 75, 94, 4, 18, 26, 40, 67,
75, 94, 4, 18, 26, 40, 67, 75, 94, 4, 18, 26, 40, 67, 75,
94, 4, 18, 26, 40, 67, 75, 94, 4, 18, 26, 40, 67, 75, 94,
4, 18, 26, 40, 67, 75, 94, 4, 18, 26, 40, 67, 75, 94, 4,
18, 26, 40, 67, 75, 94, 4, 18, 26, 40, 67, 75, 94, 4, 18,
26, 40, 67, 75, 94, 4, 18, 26, 40, 67, 75, 94, 4, 18, 26,
40, 67, 75, 94), LogY = c(0.848648866298552, 0.809143925760456,
0.734173952725014, 1.46749967704437, 0.716106254860468,
0.843871512951468,
1.09120092433378, 0.800893809796851, 0.996674977596997,
0.917613604481207,
1.71928772722884, 0.797853604855215, 0.922298691760041,
0.964654422529188,
0.782903180421921, 1.13457969553106, 1.21628917384868, 2.03084776647495,
0.872954085910578, 1.02192794559856, 0.746307251774509,
0.439812203188778,
1.11164109549224, 1.18414357836729, 2.00157711459358, 0.66577753155877,
0.856374433428581, 0.343862060001402, 0.278505653147057,
1.20632152691478, 1.32289150679746, 2.19814430598707, 0.538363941164496,
0.820038163290321, 0.070054765524828, 0.0479738684639024,
1.29137364087568, 1.52436357249377, 2.32150525025777, 0.595507040392793,
0.851417610550757, -0.115908144193410, 0.0118306018140099,
1.39448009350962, 1.71677754106603, 2.59146662837284, 0.595750060671620,
0.855387479311679, -0.430729785591898, 0.0178423104900579,
1.60964246000316, 1.99184029256509, 2.86865842252168, 0.695124899993409,
0.96175860396451, -0.600991172113926, -0.174420349224615,
1.73794158380868, 2.06718359946362, 3.04502112974038, 0.730730638403177,
0.961110819398807, -0.856693722990918, -0.549458074126028,
1.52302453916110, 2.05923417821491, 2.95885487422314, 0.302432275785407,
0.718537282886428, -1.41807557701934, -0.474811468779057,
1.88486023048201, 2.47921637905194, 3.31076232685622, 0.600331824659821,
0.997014319132077, -1.36760375228162, -0.491828047247449,
2.09353379020743, 2.74721582678157, 3.58818112810645, 0.65742631492698,
1.06027358323846, -1.58298244571648, -0.934472752299038,
1.83456803880667, 2.62936515021684, 3.56971226362308, 0.389323036788794,
0.748060984171013, -2.13928096660883, -1.26100797232926,
1.83430218924218, 2.65380472944419, 3.62529901196750, 0.271765247781891,
0.639379726021376, -2.50138714617066, -1.36434864536697,
1.95417376162485, 2.84537426171405, 3.76029816545047, 0.171262422338166,
0.63595411426061, -2.72648123827278), Y = c(2.33648781083889,
2.24598443402562, 2.08375999711081, 4.33837423214822, 2.04644932501053,
2.32535220351989, 2.97784809630864, 2.22753102803039, 2.70925849019601,
2.50330936997246, 5.5805521729813, 2.22076916113014, 2.51506510968675,
2.62388074570782, 2.18781467519546, 3.10986617752641, 3.37464176115807,
7.62054406285807, 2.39397241834575, 2.77854648986394, 2.10919688492552,
1.55241565242538, 3.03934215461328, 3.26788693363161, 7.40071868133414,
1.94600301201132, 2.35460841009671, 1.41038407371191, 1.32115407405314,
3.34117160999488, 3.75426116973332, 9.0082813655785, 1.71320166935217,
2.27058648893032, 1.07256691933604, 1.04914323924183, 3.63778012876121,
4.59222002395514, 10.1910027761430, 1.81395045797806, 2.34296591199978,
0.89055702237416, 1.01190086017652, 4.03287730840125, 5.56656151506009,
13.3493357676049, 1.81439133829339, 2.35228566604212, 0.650034535742804,
1.01800243542715, 5.00102284245171, 7.32900887997844, 17.6133726381587,
2.00395935282089, 2.61629345414488, 0.548267938797843, 0.839943753736141,
5.68562798048777, 7.90253504257589, 21.0104751440743, 2.07659729526341,
2.61459920843830, 0.424563488824068, 0.577262559146385, 4.58607500338397,
7.83996349588931, 19.2758857986172, 1.35314603256567, 2.05143035272921,
0.242179624775457, 0.622002312266844, 6.58543393476032, 11.9319106582846,
27.4060098478603, 1.82272352466727, 2.71017801013783, 0.254716592899401,
0.611507507191544, 8.11353609874542, 15.5991406590765, 36.1682306843681,
1.92981919064962, 2.8871607600197, 0.20536170381795, 0.392792910103641,
6.26242843503692, 13.8649649375266, 35.5063752059022, 1.47598127057995,
2.11289909722918, 0.117739471204143, 0.283368255138982, 6.26076379244682,
14.2079935097071, 37.5359451785784, 1.31227890476568, 1.89530490631499,
0.0819712136688162, 0.2555470735606, 7.0580849532232, 17.2079977586343,
42.961233624846, 1.18680215155599, 1.88882343537745, 0.065449185044807
), Z2 = c(0.47227027821606, 0.47227027821606, 0.47227027821606,
0.47227027821606, 0.47227027821606, 0.47227027821606, 0.47227027821606,
0.269868730409177, 0.269868730409177, 0.269868730409177,
0.269868730409177, 0.269868730409177, 0.269868730409177,
0.269868730409177, 0.0986058822648916, 0.0986058822648916,
0.0986058822648916, 0.0986058822648916, 0.0986058822648916,
0.0986058822648916, 0.0986058822648916, -0.0415182662167964,
-0.0415182662167964, -0.0415182662167964, -0.0415182662167964,
-0.0415182662167964, -0.0415182662167964, -0.0415182662167964,
-0.150503715035887, -0.150503715035887, -0.150503715035887,
-0.150503715035887, -0.150503715035887, -0.150503715035887,
-0.150503715035887, -0.228350464192381, -0.228350464192381,
-0.228350464192381, -0.228350464192381, -0.228350464192381,
-0.228350464192381, -0.228350464192381, -0.275058513686277,
-0.275058513686277, -0.275058513686277, -0.275058513686277,
-0.275058513686277, -0.275058513686277, -0.275058513686277,
-0.290627863517575, -0.290627863517575, -0.290627863517575,
-0.290627863517575, -0.290627863517575, -0.290627863517575,
-0.290627863517575, -0.275058513686277, -0.275058513686277,
-0.275058513686277, -0.275058513686277, -0.275058513686277,
-0.275058513686277, -0.275058513686277, -0.228350464192381,
-0.228350464192381, -0.228350464192381, -0.228350464192381,
-0.228350464192381, -0.228350464192381, -0.228350464192381,
-0.150503715035887, -0.150503715035887, -0.150503715035887,
-0.150503715035887, -0.150503715035887, -0.150503715035887,
-0.150503715035887, -0.0415182662167965, -0.0415182662167965,
-0.0415182662167965, -0.0415182662167965, -0.0415182662167965,
-0.0415182662167965, -0.0415182662167965, 0.0986058822648916,
0.0986058822648916, 0.0986058822648916, 0.0986058822648916,
0.0986058822648916, 0.0986058822648916, 0.0986058822648916,
0.269868730409177, 0.269868730409177, 0.269868730409177,
0.269868730409177, 0.269868730409177, 0.269868730409177,
0.269868730409177, 0.47227027821606, 0.47227027821606, 0.47227027821606,
0.47227027821606, 0.47227027821606, 0.47227027821606, 0.47227027821606
), Z3 = c(-0.456256435177108, -0.456256435177108, -0.456256435177108,
-0.456256435177108, -0.456256435177108, -0.456256435177108,
-0.456256435177108, -0.0651794907395872, -0.0651794907395872,
-0.0651794907395872, -0.0651794907395872, -0.0651794907395872,
-0.0651794907395872, -0.0651794907395872, 0.175483244298888,
0.175483244298888, 0.175483244298888, 0.175483244298888,
0.175483244298888, 0.175483244298888, 0.175483244298888,
0.290800804838157, 0.290800804838157, 0.290800804838157,
0.290800804838157, 0.290800804838157, 0.290800804838157,
0.290800804838157, 0.305842225778062, 0.305842225778062,
0.305842225778062, 0.305842225778062, 0.305842225778062,
0.305842225778062, 0.305842225778062, 0.245676542018443,
0.245676542018443, 0.245676542018443, 0.245676542018443,
0.245676542018443, 0.245676542018443, 0.245676542018443,
0.135372788459142, 0.135372788459142, 0.135372788459142,
0.135372788459142, 0.135372788459142, 0.135372788459142,
0.135372788459142, 4.80758108354045e-17, 4.80758108354045e-17,
4.80758108354045e-17, 4.80758108354045e-17, 4.80758108354045e-17,
4.80758108354045e-17, 4.80758108354045e-17, -0.135372788459142,
-0.135372788459142, -0.135372788459142, -0.135372788459142,
-0.135372788459142, -0.135372788459142, -0.135372788459142,
-0.245676542018443, -0.245676542018443, -0.245676542018443,
-0.245676542018443, -0.245676542018443, -0.245676542018443,
-0.245676542018443, -0.305842225778062, -0.305842225778062,
-0.305842225778062, -0.305842225778062, -0.305842225778062,
-0.305842225778062, -0.305842225778062, -0.290800804838157,
-0.290800804838157, -0.290800804838157, -0.290800804838157,
-0.290800804838157, -0.290800804838157, -0.290800804838157,
-0.175483244298888, -0.175483244298888, -0.175483244298888,
-0.175483244298888, -0.175483244298888, -0.175483244298888,
-0.175483244298888, 0.0651794907395869, 0.0651794907395869,
0.0651794907395869, 0.0651794907395869, 0.0651794907395869,
0.0651794907395869, 0.0651794907395869, 0.456256435177108,
0.456256435177108, 0.456256435177108, 0.456256435177108,
0.456256435177108, 0.456256435177108, 0.456256435177108),
Z4 = c(0.393641410895141, 0.393641410895141, 0.393641410895141,
0.393641410895141, 0.393641410895141, 0.393641410895141,
0.393641410895141, -0.168703461812203, -0.168703461812203,
-0.168703461812203, -0.168703461812203, -0.168703461812203,
-0.168703461812203, -0.168703461812203, -0.341732653414463,
-0.341732653414463, -0.341732653414463, -0.341732653414463,
-0.341732653414463, -0.341732653414463, -0.341732653414463,
-0.276846706563615, -0.276846706563615, -0.276846706563615,
-0.276846706563615, -0.276846706563615, -0.276846706563615,
-0.276846706563615, -0.0979187925203697, -0.0979187925203697,
-0.0979187925203697, -0.0979187925203697, -0.0979187925203697,
-0.0979187925203697, -0.0979187925203697, 0.0987052888458345,
0.0987052888458345, 0.0987052888458345, 0.0987052888458345,
0.0987052888458345, 0.0987052888458345, 0.0987052888458345,
0.244207109056825, 0.244207109056825, 0.244207109056825,
0.244207109056825, 0.244207109056825, 0.244207109056825,
0.244207109056825, 0.297295611025701, 0.297295611025701,
0.297295611025701, 0.297295611025701, 0.297295611025701,
0.297295611025701, 0.297295611025701, 0.244207109056826,
0.244207109056826, 0.244207109056826, 0.244207109056826,
0.244207109056826, 0.244207109056826, 0.244207109056826,
0.0987052888458344, 0.0987052888458344, 0.0987052888458344,
0.0987052888458344, 0.0987052888458344, 0.0987052888458344,
0.0987052888458344, -0.0979187925203697, -0.0979187925203697,
-0.0979187925203697, -0.0979187925203697, -0.0979187925203697,
-0.0979187925203697, -0.0979187925203697, -0.276846706563615,
-0.276846706563615, -0.276846706563615, -0.276846706563615,
-0.276846706563615, -0.276846706563615, -0.276846706563615,
-0.341732653414463, -0.341732653414463, -0.341732653414463,
-0.341732653414463, -0.341732653414463, -0.341732653414463,
-0.341732653414463, -0.168703461812203, -0.168703461812203,
-0.168703461812203, -0.168703461812203, -0.168703461812203,
-0.168703461812203, -0.168703461812203, 0.393641410895141,
0.393641410895141, 0.393641410895141, 0.393641410895141,
0.393641410895141, 0.393641410895141, 0.393641410895141),
Z5 = c(-0.307723646230283, -0.307723646230283, -0.307723646230283,
-0.307723646230283, -0.307723646230283, -0.307723646230283,
-0.307723646230283, 0.351684167120324, 0.351684167120324,
0.351684167120324, 0.351684167120324, 0.351684167120324,
0.351684167120324, 0.351684167120324, 0.300960489170276,
0.300960489170276, 0.300960489170276, 0.300960489170276,
0.300960489170276, 0.300960489170276, 0.300960489170276,
0.0135263141200131, 0.0135263141200131, 0.0135263141200131,
0.0135263141200131, 0.0135263141200131, 0.0135263141200131,
0.0135263141200131, -0.230869588730213, -0.230869588730213,
-0.230869588730213, -0.230869588730213, -0.230869588730213,
-0.230869588730213, -0.230869588730213, -0.307416230000283,
-0.307416230000283, -0.307416230000283, -0.307416230000283,
-0.307416230000283, -0.307416230000283, -0.307416230000283,
-0.207505955250191, -0.207505955250191, -0.207505955250191,
-0.207505955250191, -0.207505955250191, -0.207505955250191,
-0.207505955250191, 2.73029795708800e-17, 2.73029795708800e-17,
2.73029795708800e-17, 2.73029795708800e-17, 2.73029795708800e-17,
2.73029795708800e-17, 2.73029795708800e-17, 0.207505955250191,
0.207505955250191, 0.207505955250191, 0.207505955250191,
0.207505955250191, 0.207505955250191, 0.207505955250191,
0.307416230000283, 0.307416230000283, 0.307416230000283,
0.307416230000283, 0.307416230000283, 0.307416230000283,
0.307416230000283, 0.230869588730212, 0.230869588730212,
0.230869588730212, 0.230869588730212, 0.230869588730212,
0.230869588730212, 0.230869588730212, -0.0135263141200123,
-0.0135263141200123, -0.0135263141200123, -0.0135263141200123,
-0.0135263141200123, -0.0135263141200123, -0.0135263141200123,
-0.300960489170277, -0.300960489170277, -0.300960489170277,
-0.300960489170277, -0.300960489170277, -0.300960489170277,
-0.300960489170277, -0.351684167120323, -0.351684167120323,
-0.351684167120323, -0.351684167120323, -0.351684167120323,
-0.351684167120323, -0.351684167120323, 0.307723646230283,
0.307723646230283, 0.307723646230283, 0.307723646230283,
0.307723646230283, 0.307723646230283, 0.307723646230283),
Z6 = c(0.219001863703187, 0.219001863703187, 0.219001863703187,
0.219001863703187, 0.219001863703187, 0.219001863703187,
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-0.351946876459913, -0.351946876459913, -0.351946876459913,
-0.351946876459913, -0.351946876459913, -0.351946876459913,
0.469262501946444, 0.469262501946444, 0.469262501946444,
0.469262501946444, 0.469262501946444, 0.469262501946444,
0.469262501946444, -0.351946876459763, -0.351946876459763,
-0.351946876459763, -0.351946876459763, -0.351946876459763,
-0.351946876459763, -0.351946876459763, 1.30897668096353e-14,
1.30897668096353e-14, 1.30897668096353e-14, 1.30897668096353e-14,
1.30897668096353e-14, 1.30897668096353e-14, 1.30897668096353e-14,
0.351946876459646, 0.351946876459646, 0.351946876459646,
0.351946876459646, 0.351946876459646, 0.351946876459646,
0.351946876459646, -0.469262501946203, -0.469262501946203,
-0.469262501946203, -0.469262501946203, -0.469262501946203,
-0.469262501946203, -0.469262501946203, 0.351946876459683,
0.351946876459683, 0.351946876459683, 0.351946876459683,
0.351946876459683, 0.351946876459683, 0.351946876459683,
-0.170640909798657, -0.170640909798657, -0.170640909798657,
-0.170640909798657, -0.170640909798657, -0.170640909798657,
-0.170640909798657, 0.0533252843120879, 0.0533252843120879,
0.0533252843120879, 0.0533252843120879, 0.0533252843120879,
0.0533252843120879, 0.0533252843120879, -0.009844667873002,
-0.009844667873002, -0.009844667873002, -0.009844667873002,
-0.009844667873002, -0.009844667873002, -0.009844667873002,
0.000820388989416903, 0.000820388989416903, 0.000820388989416903,
0.000820388989416903, 0.000820388989416903, 0.000820388989416903,
0.000820388989416903), Z14 = c(0.000157883934625923,
0.000157883934625923,
0.000157883934625923, 0.000157883934625923, 0.000157883934625923,
0.000157883934625923, 0.000157883934625923, -0.00221037508476475,
-0.00221037508476475, -0.00221037508476475, -0.00221037508476475,
-0.00221037508476475, -0.00221037508476475, -0.00221037508476475,
0.0143674380509829, 0.0143674380509829, 0.0143674380509829,
0.0143674380509829, 0.0143674380509829, 0.0143674380509829,
0.0143674380509829, -0.0574697522039801, -0.0574697522039801,
-0.0574697522039801, -0.0574697522039801, -0.0574697522039801,
-0.0574697522039801, -0.0574697522039801, 0.158041818561072,
0.158041818561072, 0.158041818561072, 0.158041818561072,
0.158041818561072, 0.158041818561072, 0.158041818561072,
-0.316083637122359, -0.316083637122359, -0.316083637122359,
-0.316083637122359, -0.316083637122359, -0.316083637122359,
-0.316083637122359, 0.474125455683776, 0.474125455683776,
0.474125455683776, 0.474125455683776, 0.474125455683776,
0.474125455683776, 0.474125455683776, -0.541857663638757,
-0.541857663638757, -0.541857663638757, -0.541857663638757,
-0.541857663638757, -0.541857663638757, -0.541857663638757,
0.474125455683927, 0.474125455683927, 0.474125455683927,
0.474125455683927, 0.474125455683927, 0.474125455683927,
0.474125455683927, -0.316083637122536, -0.316083637122536,
-0.316083637122536, -0.316083637122536, -0.316083637122536,
-0.316083637122536, -0.316083637122536, 0.158041818561182,
0.158041818561182, 0.158041818561182, 0.158041818561182,
0.158041818561182, 0.158041818561182, 0.158041818561182,
-0.0574697522040225, -0.0574697522040225, -0.0574697522040225,
-0.0574697522040225, -0.0574697522040225, -0.0574697522040225,
-0.0574697522040225, 0.0143674380509932, 0.0143674380509932,
0.0143674380509932, 0.0143674380509932, 0.0143674380509932,
0.0143674380509932, 0.0143674380509932, -0.00221037508476627,
-0.00221037508476627, -0.00221037508476627, -0.00221037508476627,
-0.00221037508476627, -0.00221037508476627, -0.00221037508476627,
0.00015788393462604, 0.00015788393462604, 0.00015788393462604,
0.00015788393462604, 0.00015788393462604, 0.00015788393462604,
0.00015788393462604), WYearCen = c(-7, -7, -7, -7, -7, -7,
-7, -6, -6, -6, -6, -6, -6, -6, -5, -5, -5, -5, -5, -5, -5,
-4, -4, -4, -4, -4, -4, -4, -3, -3, -3, -3, -3, -3, -3, -2,
-2, -2, -2, -2, -2, -2, -1, -1, -1, -1, -1, -1, -1, 0, 0,
0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 2, 2, 2, 2, 2, 2, 2,
3, 3, 3, 3, 3, 3, 3, 4, 4, 4, 4, 4, 4, 4, 5, 5, 5, 5, 5,
5, 5, 6, 6, 6, 6, 6, 6, 6, 7, 7, 7, 7, 7, 7, 7)), .Names =
c("Year",
"WYear", "Site", "LogY", "Y",
"Z2", "Z3", "Z4", "Z5", "Z6",
"Z7",
"Z8", "Z9", "Z10", "Z11",
"Z12", "Z13", "Z14", "WYearCen"),
row.names = c(4L,
18L, 26L, 40L, 67L, 75L, 94L, 104L, 118L, 126L, 140L, 167L, 175L,
194L, 204L, 218L, 226L, 240L, 267L, 275L, 294L, 304L, 318L, 326L,
340L, 367L, 375L, 394L, 404L, 418L, 426L, 440L, 467L, 475L, 494L,
504L, 518L, 526L, 540L, 567L, 575L, 594L, 604L, 618L, 626L, 640L,
667L, 675L, 694L, 704L, 718L, 726L, 740L, 767L, 775L, 794L, 804L,
818L, 826L, 840L, 867L, 875L, 894L, 904L, 918L, 926L, 940L, 967L,
975L, 994L, 1004L, 1018L, 1026L, 1040L, 1067L, 1075L, 1094L,
1104L, 1118L, 1126L, 1140L, 1167L, 1175L, 1194L, 1204L, 1218L,
1226L, 1240L, 1267L, 1275L, 1294L, 1304L, 1318L, 1326L, 1340L,
1367L, 1375L, 1394L, 1404L, 1418L, 1426L, 1440L, 1467L, 1475L,
1494L), class = "data.frame")
At 11:17 AM 5/22/2009 -0700, spencerg wrote:> The first exaample on the "lmer" help page uses a formula
"Reaction
> ~ Days + (Days|Subject)". Here, "Subject" is the name of a
column in the
> data.frame "sleepstudy", with levels "308",
"309", ... .
>
> Does this answer your question? If no, please provide commented,
> minimal, self-contained, reproducible code, as requested in the posting
> guide "http://www.R-project.org/posting-guide.html". Your
example is not
> "self-contained, reproducible".
>
> Hope this helps. Spencer
>
>
>Leigh Ann Starcevich wrote:
>>Dear guRus:
>>
>>I am using lmer for a mixed model that includes a random intercept for a
>>set of effects that have the same distribution, Normal(0, sig2b). This
>>set of effects is of variable size, so I am using an as.formula
statement
>>to create the formula for lmer. For example, if the set of random
>>effects has dimension 8, then the lmer call is:
>>
>>Zs<- paste("Z",1:mb,sep="")
>>Trendformula <-as.formula(paste("LogY ~ WYear + (1+WYear|Site) +
(1|",
>>paste(paste(Zs,collapse="+"), ")")))
>>fit2.4a<-lmer(Trendformula, data = testsamp)
>>
>>which, for mb=8, expands to:
>>
>>fit1<-lmer(LogY ~ WYear + (1 | Site) + (1 | Year) + (1 | Z1+ Z2 + Z3
+ Z4
>>+ Z5 + Z6 + Z7 + Z8), data = testsamp)
>>
>>
>>I have no problems with this. However, if the set of random effects has
>>a dimension of 30, then the lmer call is:
>>
>>fit2<-lmer(LogY ~ WYear + (1 | Site) + (1 | Year) + (1 | Z1+Z2 + Z3 +
Z4
>>+ Z5 + Z6 + Z7 + Z8 + Z9 + Z10 + Z11 + Z12 + Z13 + Z14 + Z15 + Z16 +
Z17
>>+ Z18 + Z19 + Z20 + Z21 + Z22 + Z23 + Z24 + Z25 + Z26 + Z27 + Z28 + Z29+
>>Z30), data = testsamp)
>>
>>In this case, I get an error because the name "Z1+Z2 + Z3 + Z4 + Z5
+ Z6
>>+ Z7 + Z8 + Z9 + Z10 + Z11 + Z12 + Z13 + Z14 + Z15 + Z16 + Z17 + Z18 +
>>Z19 + Z20 + Z21 + Z22 + Z23 + Z24 + Z25 + Z26 + Z27 + Z28 + Z29+
Z30" is
>>too long to print in the output. Is there any way to name the random
>>effect in lmer so that the shorter (and more descriptive) name may be
>>used and the error avoided? Or is there a way to combine these into a
>>single variable prior to the lmer function call? In SAS, I am able to
>>parameterize these as a Toeplitz structure with bandwidth 1.
>>
>>Thanks for any help.
>>
>>Leigh Ann Starcevich
>>Doctoral student
>>Oregon State University
>>Corvallis, Oregon
>> [[alternative HTML version deleted]]
>>
>>______________________________________________
>>R-help@r-project.org mailing list
>>https://stat.ethz.ch/mailman/listinfo/r-help
>>PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
>>and provide commented, minimal, self-contained, reproducible code.
>>
>>
>
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