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Re: st: How to plot ORs and CI - results of a logistic regression
From
"Roger B. Newson" <[email protected]>
To
[email protected]
Subject
Re: st: How to plot ORs and CI - results of a logistic regression
Date
Mon, 02 Jul 2012 12:24:40 +0100
Sorry, the statement
ytitle("", axis=2)
should have been
ytitle("", axis(2))
Best wishes
Roger
Roger B Newson BSc MSc DPhil
Lecturer in Medical Statistics
Respiratory Epidemiology and Public Health Group
National Heart and Lung Institute
Imperial College London
Royal Brompton Campus
Room 33, Emmanuel Kaye Building
1B Manresa Road
London SW3 6LR
UNITED KINGDOM
Tel: +44 (0)20 7352 8121 ext 3381
Fax: +44 (0)20 7351 8322
Email: [email protected]
Web page: http://www.imperial.ac.uk/nhli/r.newson/
Departmental Web page:
http://www1.imperial.ac.uk/medicine/about/divisions/nhli/respiration/popgenetics/reph/
Opinions expressed are those of the author, not of the institution.
On 02/07/2012 12:20, Roger B. Newson wrote:
One immediate point. You shouldn't send attachments to Statalist. (They
are against Statalist rules, because they might cause problems to the
list member with the least technologically advanced email server). If
you want to send attachments to people, then you should email them
privately, and not send them to the list.
However, if you want to remove the word "confint", then you should use
the option
ytitle("", axis=2)
which causes the right-hand Y-axis title to be an empty string, instead
of being the name or label of the Y-variable.
I don't know why the value labels on the left axis have disappeared. Do
you still have the -ylabel()- statement for the left axis, as you did
before? If you have 2 Y-axes, then you should have 2 -ylabel()-
statements. The left-hand -ylabel()- statement might be:
ylab(, valuelabel angle(0) axis(1))
What exactly do you mean by "print on top of the estimates"?
Best wishes
Roger
Roger B Newson BSc MSc DPhil
Lecturer in Medical Statistics
Respiratory Epidemiology and Public Health Group
National Heart and Lung Institute
Imperial College London
Royal Brompton Campus
Room 33, Emmanuel Kaye Building
1B Manresa Road
London SW3 6LR
UNITED KINGDOM
Tel: +44 (0)20 7352 8121 ext 3381
Fax: +44 (0)20 7351 8322
Email: [email protected]
Web page: http://www.imperial.ac.uk/nhli/r.newson/
Departmental Web page:
http://www1.imperial.ac.uk/medicine/about/divisions/nhli/respiration/popgenetics/reph/
Opinions expressed are those of the author, not of the institution.
On 02/07/2012 11:31, Sofia Ramiro wrote:
Thank you.
It is moving on the right direction (attached), but now the labels of
the variables on the left-hand side disappeared, whereas earlier I had
it. Any idea why?
On the right-hand side I do have the estimates and CI printed. Is it
possible to get rid of the 2nd y-axis title "confint"? And is it
possible to print on top of the estimates, something like "Odds Ratios
(95% CI)"?
Thank you very much for your help!
Best wishes,
Sofia
----------------------------------------
Date: Mon, 2 Jul 2012 10:34:31 +0100
From: [email protected]
To: [email protected]
Subject: Re: st: How to plot ORs and CI - results of a logistic
regression
Sorry, I should have specified a -ylabel()- option for your -rcap- plot.
This should probably be:
ylabel(, valuelabel angle(0) axis(2))
which should cause the values of -confint- to be printed with value
labels, which should be confidence intervals.
I hope this helps. Let me know if it doesn't.
Best wishes
Roger
Roger B Newson BSc MSc DPhil
Lecturer in Medical Statistics
Respiratory Epidemiology and Public Health Group
National Heart and Lung Institute
Imperial College London
Royal Brompton Campus
Room 33, Emmanuel Kaye Building
1B Manresa Road
London SW3 6LR
UNITED KINGDOM
Tel: +44 (0)20 7352 8121 ext 3381
Fax: +44 (0)20 7351 8322
Email: [email protected]
Web page: http://www.imperial.ac.uk/nhli/r.newson/
Departmental Web page:
http://www1.imperial.ac.uk/medicine/about/divisions/nhli/respiration/popgenetics/reph/
Opinions expressed are those of the author, not of the institution.
On 01/07/2012 21:31, Sofia Ramiro wrote:
yes, you are totally right. Sorry about this.
Now I manage to run it and to get a graph. however, I don't have the
estimates and CI printed on the right-hand side. The only thing
added in this graph was a 2nd y-axis on the right named "confint"
and nothing else differed. I am not sure I will be able to send the
graph attached, but I will try.
Any hints?
thanks!
Best wishes,
Sofia
----------------------------------------
Date: Sun, 1 Jul 2012 20:53:48 +0100
From: [email protected]
To: [email protected]
Subject: Re: st: How to plot ORs and CI - results of a logistic
regression
I suspect that you have an out-of-date version of -sdecode-. If your
current version of Stata is Version 11 or higher, then you should
update
-sdecode- (and -bmjcip-) to the most recent version downloadable
from SSC.
I hope this helps. Let me know if it doesn't.
Best wishes
Roger
Roger B Newson BSc MSc DPhil
Lecturer in Medical Statistics
Respiratory Epidemiology and Public Health Group
National Heart and Lung Institute
Imperial College London
Royal Brompton Campus
Room 33, Emmanuel Kaye Building
1B Manresa Road
London SW3 6LR
UNITED KINGDOM
Tel: +44 (0)20 7352 8121 ext 3381
Fax: +44 (0)20 7351 8322
Email: [email protected]
Web page: http://www.imperial.ac.uk/nhli/r.newson/
Departmental Web page:
http://www1.imperial.ac.uk/medicine/about/divisions/nhli/respiration/popgenetics/reph/
Opinions expressed are those of the author, not of the institution.
On 01/07/2012 20:41, Sofia Ramiro wrote:
Thank you very much for your hel, Roger.
The first part worked very well and now I manage to include the
variable labels, thanks!
however, I got some problems with the 2nd part
. bmjcip S_1 S_2 S_3, cformat(%8.2f)
option ftrim not allowed
I still tried using other cformats and even xmlsub, but none of
them worked.
Can you please help me?
thanks!
Sofia
----------------------------------------
Date: Sun, 1 Jul 2012 20:12:14 +0100
From: [email protected]
To: [email protected]
Subject: Re: st: How to plot ORs and CI - results of a logistic
regression
To reconstruct the variable labels into a variable with value
labels,
use the -label- option of -parmest-, together with the -sencode-
package, which you can also download from SSC, and which is a
"super"
version of -encode-. As in:
#delim ;
logistic asdasimprov3M1 asdascalc male num_anos_escolaridade
eva_total_colunaconvhighlow4;
parmest, norestore eform label;
sencode label, gene(parmlab);
twoway scatter parmlab estimate,
xline(1) ylab(, valuelabel angle(0)) ||
rcap min95 max95 parmlab, horizontal
legend(order(1 "point estimate"
2 "95% conf. int.") pos(6))
xlabel(0(1)8) xtitle("Odds Ratio") ytitle("");
And, if you want to print the estimates and confidence limits on the
right-hand side of the graph, then you can download the -sdecode-
and
-bmjcip- packages from SSC, and use those. (-sdecode- is a "super"
version of -decode-, and -bmjcip- is a front end for -sdecode-.)
As in:
#delim ;
logistic asdasimprov3M1 asdascalc male num_anos_escolaridade
eva_total_colunaconvhighlow4;
parmest, norestore eform label;
sencode label, gene(parmlab);
clonevar S_1=estimate;
clonevar S_2=min95;
clonevar S_3=max96;
bmjcip S_1 S_2 S_3, cformat(%8.2f);
gene confint=S_1+" "+S_2+" "+S_3;
sencode confint, many replace;
twoway scatter parmlab estimate,
xline(1) ylab(, valuelabel angle(0)) yaxis(1) ||
rcap min95 max95 confint, horizontal yaxis(2) || ,
legend(order(1 "point estimate"
2 "95% conf. int.") pos(6))
xlabel(0(1)8) xtitle("Odds Ratio") ytitle("");
This should give the confidence intervals for the odds ratios on the
right-hand axis to 2 decimal places. (Let me know if it doesn't.)
Best wishes
Roger
Roger B Newson BSc MSc DPhil
Lecturer in Medical Statistics
Respiratory Epidemiology and Public Health Group
National Heart and Lung Institute
Imperial College London
Royal Brompton Campus
Room 33, Emmanuel Kaye Building
1B Manresa Road
London SW3 6LR
UNITED KINGDOM
Tel: +44 (0)20 7352 8121 ext 3381
Fax: +44 (0)20 7351 8322
Email: [email protected]
Web page: http://www.imperial.ac.uk/nhli/r.newson/
Departmental Web page:
http://www1.imperial.ac.uk/medicine/about/divisions/nhli/respiration/popgenetics/reph/
Opinions expressed are those of the author, not of the institution.
On 01/07/2012 19:13, Sofia Ramiro wrote:
Dear Statalist members,
I am trying to plot the results of a logistic regression. I
would like to have a graph with the ORs and 95%CI plotted.
On the y-axis I would like to include the label of the variables
names and, ideally (if possible), I would like to add, on the
right hand side of the graph, the ORs and 95%CI written (just as
we see for the forrest plots in a meta-analysis).
Having reviewed what as been written on this topic on statalist,
this is what I did:
logistic asdasimprov3M1 asdascalc male num_anos_escolaridade
eva_total_colunaconvhighlow4
parmest, norestore eform
egen axis= axis(estimate), label(parm)
twoway scatter axis estimate, ///
xline(1) ylab(, valuelabel angle(0)) || ///
rcap min95 max95 axis, horizontal ///
legend(order(1 "point estimate" ///
2 "95% conf. int.") pos(6)) ///
xlabel(0(1)8) xtitle("Odds Ratio") ytitle("")
My problems are:
- On the y-axis I get the variables' names, but they are
abbreviated names for my own use - how do I manage to put there
labels - eg instead of male, I would like to have "Male gender
(vs. female)" ?
- Is it to possible to create a column on the right hand side of
the graph where the ORs and 95%CI are written (in addition to
being ploted in the graph)? If yes, how?
thanks!
Sofia
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