The psych::print.psych() function produces beautiful output for the factor analysis objects produced by psych::fa(). I would like to obtain the table that follows the text "Standardized loadings (pattern matrix) based upon correlation matrix" as a data frame without cutting and pasting.
library(psych)
my.fa <- fa(Harman74.cor$cov, 4)
my.fa #Equivalent to print.psych(my.fa)
Yields the following (I'm showing the first four items here):
Factor Analysis using method = minres
Call: fa(r = Harman74.cor$cov, nfactors = 4)
Standardized loadings (pattern matrix) based upon correlation matrix
MR1 MR3 MR2 MR4 h2 u2 com
VisualPerception 0.04 0.69 0.04 0.06 0.55 0.45 1.0
Cubes 0.05 0.46 -0.02 0.01 0.23 0.77 1.0
PaperFormBoard 0.09 0.54 -0.15 0.06 0.34 0.66 1.2
Flags 0.18 0.52 -0.04 -0.02 0.35 0.65 1.2
I tried examining the source code for print.psych
(Using View(print.psych)
in RStudio), but could only find a section for printing standardized loadings for 'Factor analysis by Groups'.
The my.fa$weights
are not standardized, and the table is missing the h2, u2, and com columns. If they can be standardized, the following code could work:
library(data.table)
library(psych)
my.fa <- fa(Harman74.cor$cov,4)
my.fa.table <- data.table(dimnames(Harman74.cor$cov)[[1]],
my.fa$weights, my.fa$communalities, my.fa$uniquenesses, my.fa$complexity)
setnames(my.fa.table, old = c("V1", "V3", "V4", "V5"),
new = c("item", "h2", "u2", "com"))
Printing my.fa.table gives the following (I show the first four lines), which indicates $weights is incorrect:
item MR1 MR3 MR2 MR4 h2 u2 com
1: VisualPerception -0.021000973 0.28028576 0.006002429 -0.001855021 0.5501829 0.4498201 1.028593
2: Cubes -0.003545975 0.11022570 -0.009545919 -0.012565221 0.2298420 0.7701563 1.033828
3: PaperFormBoard 0.028562047 0.13244895 -0.019162262 0.014448449 0.3384722 0.6615293 1.224154
4: Flags 0.009187032 0.14430196 -0.025374834 -0.033737089 0.3497962 0.6502043 1.246102
Replacing $weights
with $loadings
gives the following error message:
Error in as.data.frame.default(x, ...) :
cannot coerce class ‘"loadings"’ to a data.frame
Adding [,]
fixed the class issue:
library(data.table)
library(psych)
my.fa <- fa(Harman74.cor$cov,4)
my.fa.table <- data.table(dimnames(Harman74.cor$cov)[[1]],
my.fa$loadings[,], my.fa$communalities, my.fa$uniquenesses, my.fa$complexity)
setnames(my.fa.table, old = c("V1", "V3", "V4", "V5"),
new = c("item", "h2", "u2", "com"))
my.fa.table
item MR1 MR3 MR2 MR4 h2 u2 com
1: VisualPerception 0.04224875 0.686002901 0.041831185 0.05624303 0.5501829 0.4498201 1.028593
2: Cubes 0.05309628 0.455343417 -0.022143990 0.01372376 0.2298420 0.7701563 1.033828
3: PaperFormBoard 0.08733001 0.543848733 -0.147686005 0.05523805 0.3384722 0.6615293 1.224154
4: Flags 0.17641395 0.517235582 -0.038878915 -0.02229273 0.3497962 0.6502043 1.246102
I would still be happy to get an answer that does this more elegantly or explains why this isn't built in.
It is not built in because each person wants something slightly different. As you discovered, you can create a table by combining four objects from fa: the loadings, the communalities, the uniqueness, and the complexity.
df <- data.frame(unclass(f$loadings), h2=f$communalities, u2= f$uniqueness,com=f$complexity)
round(df,2)
so, for the Thurstone correlation matrix:
f <- fa(Thurstone,3)
df <- data.frame(unclass(f$loadings), h2=f$communalities, u2= f$uniqueness,com=f$complexity)
round(df,2)
Produces
MR1 MR2 MR3 h2 u2 com
Sentences 0.90 -0.03 0.04 0.82 0.18 1.01
Vocabulary 0.89 0.06 -0.03 0.84 0.16 1.01
Sent.Completion 0.84 0.03 0.00 0.74 0.26 1.00
First.Letters 0.00 0.85 0.00 0.73 0.27 1.00
Four.Letter.Words -0.02 0.75 0.10 0.63 0.37 1.04
Suffixes 0.18 0.63 -0.08 0.50 0.50 1.20
Letter.Series 0.03 -0.01 0.84 0.73 0.27 1.00
Pedigrees 0.38 -0.05 0.46 0.51 0.49 1.96
Letter.Group -0.06 0.21 0.63 0.52 0.48 1.25
Or, you can try the fa2latex for nice LaTex based formatting.
fa2latex(f)
which produces a LateX table in quasi APA style.
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