# [R] svyhist

Sun Oct 7 03:19:26 CEST 2012

```Hi Anthony,

The ylim () has been added to the code (please see below), and I got 4 plots that have the same y -dimension.

Each plot displays 2 distributions - one as histogram from the data and another one as line (i.e., idealized theoretical normal distribution?).

My question is, "Is there way to change the distribution in the line () function and try other theoretical distribution to approximate the observed distribution?"

Thanks,

########################################

MyBreaks <- c(18,35,45,55,65,75,85,95)

png("svyhist_no_spd_age_at_inteview.png")
svyhist (~age_p,
subset (nhis, xspd2=='No SPD'), breaks=MyBreaks,
ylim = c(0,0.035),
main= " ",
col="grey80", xlab="Age at Interview among those Who had no SPD"
)

lines (svysmooth(~dthage, bandwidth=5,subset(nhis, xspd2=='No SPD')), lwd=2)

dev.off ()

________________________________________
From: Anthony Damico [ajdamico at gmail.com]
Sent: Saturday, October 06, 2012 6:56 AM
Cc: David Winsemius; R help
Subject: Re: [R] svyhist

?ylim says "numeric vectors of length 2"  - so just the beginning and end.

?svyhist doesn't specifically mention the ylim parameter, meaning you should look for a "..." in the arguments list and click through to the page for ?hist

?hist has an example that shows the ylim parameter only containing the beginning and end values.

try using

ylim = c( 0 , 0.030 )

if you're looking to set the tick marks, look at ?axis   ;)

On Fri, Oct 5, 2012 at 11:18 PM, Muhuri, Pradip (SAMHSA/CBHSQ) <Pradip.Muhuri at samhsa.hhs.gov<mailto:Pradip.Muhuri at samhsa.hhs.gov>> wrote:
Dear Anthony and David,

Sorry- the earlier-sent plots were mislabeled, which I have corrected and attached.  But, the y-lim issue is yet to be resolved.

Thanks,

________________________________________
From: Anthony Damico [ajdamico at gmail.com<mailto:ajdamico at gmail.com>]
Sent: Friday, October 05, 2012 7:29 PM
To: David Winsemius
Cc: Muhuri, Pradip (SAMHSA/CBHSQ); R help
Subject: Re: [R] svyhist

this worked for me -- and doesn't require removing the PSUs from the design  :)

svyhist (~dthage,
subset (nhis, xspd2=='No SPD'), breaks=MyBreaks, main= " ",
col="grey80",
xlab="Age at Death Distribution"
)
lines (svysmooth(~dthage, bandwidth=5,subset(nhis, xspd2=='No SPD')), lwd=2)

Dr. Lumley has written quite a bit about single-PSU strata here: http://faculty.washington.edu/tlumley/survey/exmample-lonely.html

On Fri, Oct 5, 2012 at 7:16 PM, David Winsemius <dwinsemius at comcast.net<mailto:dwinsemius at comcast.net><mailto:dwinsemius at comcast.net<mailto:dwinsemius at comcast.net>>> wrote:

On Oct 5, 2012, at 3:33 PM, Muhuri, Pradip (SAMHSA/CBHSQ) wrote:

> Hello,
>
> I was trying to draw histograms of age at death  and got the following   2 error messages:
>
>
> 1)  Error in tapply(1:NROW(x), list(factor(strata)), function(index) { :
>
>          arguments must have same length

This is the top of the output of str applied to the data argument you offered to svyhist:

> str(subset (nhis, xspd2==2) )
List of 9
\$ cluster   :'data.frame':     0 obs. of  1 variable:
..\$ psu: Factor w/ 47 levels "109.1","115.2",..:
..- attr(*, "terms")=Classes 'terms', 'formula' length 2 ~psu
.. .. ..- attr(*, "variables")= language list(psu)
.. .. ..- attr(*, "factors")= int [1, 1] 1
.. .. .. ..- attr(*, "dimnames")=List of 2
.. .. .. .. ..\$ : chr "psu"
.. .. .. .. ..\$ : chr "psu"

At least one problem seems pretty clear. No data. That can be corrected by wrapping as.numeric() around the factor on which you are subsetting in two places.

Another problem may arise when you restrict to one class only, namely there won't any "design" to work with. All the clusters .... there would be only one ....  no longer have any multiplicity,  and svyhist apparently isn't built to handle situation, at least with that design argument.

Error in onestrat(x[index, , drop = FALSE], clusters[index], nPSU[index][1],  :
Stratum (2) has only one PSU at stage 1

Taking the 'stratum' argument out of the design() spec allows it to proceed, but I do not know if that is introducing invalidity in the analysis.
--
David.

>
>
> 2)  Error in findInterval(mm[, i], gx) : 'vec' contains NAs
>
>
> 1: In min(x) : no non-missing arguments to min; returning Inf
>
> 2: In max(x) : no non-missing arguments to max; returning -Inf
>
>
>
> I would appreciate if someone could help me resolve these issues.
>
>
>
> Below is reproducible example.
>
> Thanks,
>
>
>
>
> setwd ("E:/RDATA")
> options(width = 120)
> library (survey)
> library (KernSmooth)
> xd1 <-
> "dthage ypll_75 xspd2 psu stratum wt8
>   56      19     2   2      33 1512.7287
>   86       0     2   2     129 1830.6400
>   81       0     2   1      67  536.1400
>   47      28     2   1      17  519.8350
>   71       4     1   1     225  254.4087
>   72       3     1   1     238  424.4787
>   75       0     2   2     115  407.0987
>   83       0     2   2      46  622.5137
>   79      -4     2   1     300  509.1212
>   78      -3     2   1     133  517.3325
>   71       4     2   2     328 1179.3063
>   64      11     2   1       2  301.5250
>   78      -3     2   1      62  253.9025
>   65      10     2   2     260  932.6575
>   75       0     2   1     247  145.5900
>   63      12     2   2     156  247.0650
>   71       4     2   1     146  829.4787
>   76      -1     2   2     234  432.5437
>   76       0     2   1     109  859.6888
>   68       7     2   1     228 1236.2975
>   64      11     2   2     167  347.5788
>   62      13     2   2     312  354.0500
>   77       0     2   2     275  882.1938
>   78      -3     2   1      28  481.5975
>   81       0     2   1     180 1285.5425
>   79       0     2   2     205  576.0000
>   70       5     2   1     173  128.3725
>   75       0     2   2     189  359.3863
>   78       0     2   1     332  512.8062
>   74       1     2   2      14  449.0800
>   77       0     2   1     242  283.0013
>   92       0     2   1     152  915.3200
>   69       6     2   2     217  672.7663
>   53      22     2   1     290 1430.8812
>   81       0     2   2      90  699.1075
>   67       8     2   2     316  607.6500
>   85       0     2   1     171  312.9850
>   93       0     2   2     119  936.1275
>   82       0     2   1     118  186.4450
>   71       4     2   2     329  729.1213
>   43      32     2   1     215  887.6313
>   74       1     2   1     180  569.9338
>   89       0     2   1     324 1054.0887
>   81       0     2   2      47  532.0987
>   70       5     2   1      53  450.8750
>   75       0     1   1      38  557.9750
>   56      19     2   1      17  512.6363
>   90       0     2   2      29  569.7888
>   70       5     2   1     251  554.2138
>   56      19     2   2      14 1114.1762"
>
>
> # Grouping variable (xspd) to be  factor
> tor <- within(tor, {
>         xspd2 <- factor(xspd2,levels=c (1,2),
>                         labels=c('SPD', 'No SPD'), ordered=TRUE)
>                   }
>              )
> # object with survey design variables and data
> nhis <- svydesign (id=~psu,strat=~stratum, weights=~wt8, data=tor, nest=TRUE)
>
> MyBreaks <- c(18,35,45,55,65,75,85,95)
>
> png("svyhist_age_at_death.png")
>
> svyhist (~dthage,
>            subset (nhis, xspd2==2), breaks=MyBreaks, main= " ",
>            col="grey80",
>            xlab="Age at Death Distribution"
>            )
> lines (svysmooth(~dthage, bandwidth=5,subset(nhis, xspd2==2)), lwd=2)
>
> dev.off ()
>
>
>
>
>
>
> 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
>
> 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/>
>
>
>       [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org<mailto:R-help at r-project.org><mailto:R-help at r-project.org<mailto:R-help at r-project.org>> mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> and provide commented, minimal, self-contained, reproducible code.

David Winsemius, MD
Alameda, CA, USA

______________________________________________
R-help at r-project.org<mailto:R-help at r-project.org><mailto:R-help at r-project.org<mailto:R-help at r-project.org>> mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
and provide commented, minimal, self-contained, reproducible code.

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