Re: [R] meta-analysis normal quantile plot metafor
@ Micheal: thanks I understand now. @ Wolfgang: apparently, using the DL-estimator solved my issue and leaded to a result with only a slight difference with metawin. thanks ! 2012/1/17 Michael Dewey i...@aghmed.fsnet.co.uk: At 12:15 16/01/2012, Ricc wrote: Hello, I used the default parameters: - envelope: default is TRUE - level: the default is to take the value from the object (I do not understand this very well) When you specified your original model to rma.uni you either specified the level or let it default (to 95). That value is stored in the object returned by rma.uni and used by qqnorm.rma.uni unless you override it. You can see what is in the object returned by rma.uni by using str. - bonferroni : no - reps : default is 1000 - smooth: default is TRUE - bass : default is 0 I used no other arguments. 2012/1/13 Michael Dewey i...@aghmed.fsnet.co.uk: At 15:53 11/01/2012, Ricc wrote: Hello, I once used the metawin software to perform a meta-analysis (see metawinsoft, Rosenberg et al.) and produced normal qqplot to test for a potential bias in the dataset. I now want to re-use the same dataset with the package metafor by W. Viechtbauer (great package btw). I run the qqnorm.rma.uni function. I use standardized effect sizes as in metawin. I think it would help if you said which parameters you used to control the envelope. Did you smooth it? Did you use the Bonferroni correction? QQplot generated with metafor differs from the plot obtained with metawin: most of the datapoint fall outside the confidence envelope (using the same confidence level). I don't understand very well how the pseudo confidence envelope was created in metafor. Is it more conservative than that from metawin or created using the package envelope ? Unfortunately I do not have access to metawin's code so that I cannot compare implementations but the manual let me think that metawin print classical confidence interval... Thanks for input ! Ricc More precisions: R version 2.13.1 (2011-07-08) Platform: x86_64-pc-linux-gnu (64-bit) metafor_1.6-0 Michael Dewey i...@aghmed.fsnet.co.uk http://www.aghmed.fsnet.co.uk/home.html Michael Dewey i...@aghmed.fsnet.co.uk http://www.aghmed.fsnet.co.uk/home.html __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] meta-analysis normal quantile plot metafor
Hello, I used the default parameters: - envelope: default is TRUE - level: the default is to take the value from the object (I do not understand this very well) - bonferroni : no - reps : default is 1000 - smooth: default is TRUE - bass : default is 0 I used no other arguments. 2012/1/13 Michael Dewey i...@aghmed.fsnet.co.uk: At 15:53 11/01/2012, Ricc wrote: Hello, I once used the metawin software to perform a meta-analysis (see metawinsoft, Rosenberg et al.) and produced normal qqplot to test for a potential bias in the dataset. I now want to re-use the same dataset with the package metafor by W. Viechtbauer (great package btw). I run the qqnorm.rma.uni function. I use standardized effect sizes as in metawin. I think it would help if you said which parameters you used to control the envelope. Did you smooth it? Did you use the Bonferroni correction? QQplot generated with metafor differs from the plot obtained with metawin: most of the datapoint fall outside the confidence envelope (using the same confidence level). I don't understand very well how the pseudo confidence envelope was created in metafor. Is it more conservative than that from metawin or created using the package envelope ? Unfortunately I do not have access to metawin's code so that I cannot compare implementations but the manual let me think that metawin print classical confidence interval... Thanks for input ! Ricc More precisions: R version 2.13.1 (2011-07-08) Platform: x86_64-pc-linux-gnu (64-bit) metafor_1.6-0 Michael Dewey i...@aghmed.fsnet.co.uk http://www.aghmed.fsnet.co.uk/home.html __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] meta-analysis normal quantile plot metafor
Hello, I once used the metawin software to perform a meta-analysis (see metawinsoft, Rosenberg et al.) and produced normal qqplot to test for a potential bias in the dataset. I now want to re-use the same dataset with the package metafor by W. Viechtbauer (great package btw). I run the qqnorm.rma.uni function. I use standardized effect sizes as in metawin. QQplot generated with metafor differs from the plot obtained with metawin: most of the datapoint fall outside the confidence envelope (using the same confidence level). I don't understand very well how the pseudo confidence envelope was created in metafor. Is it more conservative than that from metawin or created using the package envelope ? Unfortunately I do not have access to metawin's code so that I cannot compare implementations but the manual let me think that metawin print classical confidence interval... Thanks for input ! Ricc More precisions: R version 2.13.1 (2011-07-08) Platform: x86_64-pc-linux-gnu (64-bit) metafor_1.6-0 __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
