Joggle and Wave 1 Neuropsych PCA Analyses

Initial Extraction of the Components

Jogglew01NeupsyPCA<-principal(Jogglew01Neupsy,nfactors=21,rotate="none")
principal(r=Jogglew01Neupsy,nfactors=21,rotate="none")

Eigen Values

ev <- eigen(cor(Jogglew01Neupsy))
ev

Scree Plot

ap <- parallel(subject=nrow(Jogglew01Neupsy),var=ncol(Jogglew01Neupsy), rep=100,cent=.05)
nS <- nScree(x=ev$values, aparallel=ap$eigen$qevpea)
plotnScree(nS)

plot of chunk unnamed-chunk-4

Rotation to Final Solution

Jogglew01NeupsyPCA.r<-principal(Jogglew01Neupsy,nfactors=3,rotate="varimax",scores=T)
principal(r=Jogglew01Neupsy,nfactors=3,rotate="varimax",scores=T)
## Principal Components Analysis
## Call: principal(r = Jogglew01Neupsy, nfactors = 3, rotate = "varimax", 
##     scores = T)
## Standardized loadings (pattern matrix) based upon correlation matrix
##                   RC1   RC2   RC3    h2    u2
## BARTaccuracy1    0.35  0.20  0.09 0.170 0.830
## DSSTefficiency1  0.73  0.25 -0.10 0.610 0.390
## LOTefficiency1   0.55  0.47 -0.09 0.526 0.474
## PVTefficiency1   0.33  0.41 -0.17 0.306 0.694
## AMefficiency1    0.50 -0.09 -0.11 0.274 0.726
## NBACKaccuracy1   0.29 -0.08 -0.03 0.094 0.906
## VOLTefficiency1  0.70 -0.09 -0.05 0.495 0.505
## MPTspeed1        0.61  0.11 -0.11 0.397 0.603
## BVRtot1         -0.46 -0.50  0.21 0.506 0.494
## CrdRot1          0.42  0.52 -0.20 0.490 0.510
## IdentPicCor1     0.63  0.31 -0.09 0.509 0.491
## IdentPicErr1     0.12 -0.32 -0.09 0.125 0.875
## CVLtca1          0.27  0.49  0.02 0.310 0.690
## DigitSpanFwd1   -0.05  0.56 -0.19 0.354 0.646
## DigitSpanBck1   -0.03  0.69 -0.24 0.540 0.460
## FluencyWord1     0.31  0.40  0.16 0.284 0.716
## TrailsAtestSec1 -0.48 -0.13  0.28 0.327 0.673
## TrailsBminusA1  -0.17 -0.13  0.93 0.918 0.082
## TrailsBtestSec1 -0.20 -0.14  0.94 0.937 0.063
## Attention1       0.05  0.47 -0.30 0.311 0.689
## ClockTotal1      0.06  0.49  0.00 0.243 0.757
## 
##                        RC1  RC2  RC3
## SS loadings           3.55 2.96 2.22
## Proportion Var        0.17 0.14 0.11
## Cumulative Var        0.17 0.31 0.42
## Proportion Explained  0.41 0.34 0.25
## Cumulative Proportion 0.41 0.75 1.00
## 
## Test of the hypothesis that 3 components are sufficient.
## 
## The degrees of freedom for the null model are  210  and the objective function was  NaN
## The degrees of freedom for the model are 150  and the objective function was  33.7 
## The total number of observations was  293  with MLE Chi Square =  9508  with prob <  0 
## 
## Fit based upon off diagonal values = 0.92