Hi List,
My goal is to force R not to print in scientific notation in the sixth column
(rel_diff - for the p-value) of my data frame (not a matrix).
I have used the format.pval () and printCoefmat () functions on the data frame.
The R script is appended below.
This issue is that use of the format.pval () and printCoefmat () functions on
the data frame gives me the desired results, but coerces the character string
into NAs for the two character variables, because my object is a data frame,
not a matrix. Please see the first output below: contrast_level1
contrast_level2).
Is there a way I could have avoid printing the NAs in the character fields when
using the format.pval () and printCoefmat () on the data frame?
I would appreciate receiving your help.
Thanks,
Pradip
setwd ("F:/PR1/R_PR1")
load (file = "sigtests_overall_withid.rdata")
#format.pval(tt$p.value, eps=0.0001)
# keep only selected columns from the above data frame
keep_cols1 <- c("contrast_level1", "contrast_level2","mean_level1",
"mean_level2", "rel_diff",
"p_mean", "cohens_d")
#subset the data frame
y0410_1825_mf_alc <- subset (sigtests_overall_withid,
years=="0410" & age_group=="1825"
& gender_group=="all" & drug=="alc"
& contrast_level1=="wh",
select=keep_cols1)
#change the row.names
row.names (y0410_1825_mf_alc)= 1:dim(y0410_1825_mf_alc)[1]
#force
format.pval(y0410_1825_mf_alc$p_mean, eps=0.0001)
#print the observations from the sub-data frame
options (width=120,digits=3 )
#y0410_1825_mf_alc
printCoefmat(y0410_1825_mf_alc, has.Pvalue=TRUE, eps.Pvalue=0.0001)
####################### When format.pval () and printCoefmat () used
contrast_level1 contrast_level2 mean_level1 mean_level2 rel_diff p_mean cohens_d
1 NA NA 18.744 11.911 0.574 0.00
0.175
2 NA NA 18.744 14.455 0.297 0.00
0.110
3 NA NA 18.744 13.540 0.384 0.00
0.133
4 NA NA 18.744 6.002 2.123 0.00
0.333
5 NA NA 18.744 5.834 2.213 0.00
0.349
6 NA NA 18.744 7.933 1.363 0.00
0.279
7 NA NA 18.744 10.849 0.728 0.00
0.203
8 NA NA 18.744 7.130 1.629 0.00
0.298
9 NA NA 18.744 9.720 0.928 0.00
0.242
10 NA NA 18.744 9.600 0.952 0.00
0.242
11 NA NA 18.744 16.135 0.162 0.17
0.067 .
12 NA NA 18.744 NA NA NA
NA
13 NA NA 18.744 10.465 0.791 0.00
0.213
14 NA NA 18.744 15.149 0.237 0.02
0.092 .
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
Warning messages:
1: In data.matrix(x) : NAs introduced by coercion
2: In data.matrix(x) : NAs introduced by coercion
####################### When format.pval () and printCoefmat () not used
contrast_level1 contrast_level2 mean_level1 mean_level2 rel_diff p_mean
cohens_d
1 wh 2+hi 18.7 11.91 0.574 1.64e-05
0.1753
2 wh 2+rc 18.7 14.46 0.297 9.24e-06
0.1101
3 wh aian 18.7 13.54 0.384 9.01e-05
0.1335
4 wh asan 18.7 6.00 2.123 2.20e-119
0.3326
5 wh blck 18.7 5.83 2.213 0.00e+00
0.3490
6 wh csam 18.7 7.93 1.363 1.27e-47
0.2793
7 wh cub 18.7 10.85 0.728 6.12e-08
0.2025
8 wh dmcn 18.7 7.13 1.629 1.59e-15
0.2981
9 wh hisp 18.7 9.72 0.928 3.27e-125
0.2420
10 wh mex 18.7 9.60 0.952 8.81e-103
0.2420
11 wh nhpi 18.7 16.14 0.162 1.74e-01
0.0669
12 wh othh 18.7 NA NA NA
NA
13 wh pr 18.7 10.47 0.791 3.64e-23
0.2131
14 wh spn 18.7 15.15 0.237 1.58e-02
0.0922
Pradip K. Muhuri, PhD
Statistician
Substance Abuse & Mental Health Services Administration
The Center for Behavioral Health Statistics and Quality
Division of Population Surveys
1 Choke Cherry Road, Room 2-1071
Rockville, MD 20857
Tel: 240-276-1070
Fax: 240-276-1260
e-mail: pradip.muh...@samhsa.hhs.gov<mailto:pradip.muh...@samhsa.hhs.gov>
The Center for Behavioral Health Statistics and Quality your feedback. Please
click on the following link to complete a brief customer survey:
http://cbhsqsurvey.samhsa.gov<http://cbhsqsurvey.samhsa.gov/>
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