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Use this tag for any *on-topic* question that (a) involves `R` either as a critical part of the question or expected answer, & (b) is not *just* about how to use `R`.

2 votes

Diagnostic Meta-Regression with mada in R

I think your point is correct, in the sense that nominal significance is met (p=0.023) for the false positive rate (FPR), which appears positively associated with self-administered questionnaires (SAQ …
Giuseppe Biondi-Zoccai's user avatar
0 votes

How to interpret heterogeneity in a meta analytic model

Egger's), which is easily performed in R with the funnel command and with the regtest command. …
Giuseppe Biondi-Zoccai's user avatar
1 vote
0 answers
222 views

Is survey analysis in Stata or R equivalent to a fixed effect generalized linear model?

I am conducting an individual patient level data meta-analysis using the survey package in R (I tried Stata 13 but I get stuck with an error). … As per meta-analytic practice, I would prefer to conduct both fixed and random effect analyses, but it appears no such option is available with the survey packages in either Stata or R. …
Giuseppe Biondi-Zoccai's user avatar
5 votes

multiple imputation and propensity scores

As I previously stated, instead of doing propensity matching it can be reasonable to use inverse probability of treatment weighting after missing data imputation. Suitable Stata examples follow: cle …
Giuseppe Biondi-Zoccai's user avatar
1 vote

Diagnostic accuracy meta-analysis using MADA in R

You can indeed use the mada R package, by means of the madauni command for univariate meta-analysis and the SummaryPts command for bivariate meta-analysis (the latter being recommended for instance by …
Giuseppe Biondi-Zoccai's user avatar
1 vote
0 answers
605 views

Is mediation analysis for survival data equivalent to survival analysis with time-depent cov...

outcomes, some non-fatal which occur earlier and some fatal occurring later, I have stumbled upon mediation analysis (eg Zhang et al, Ann Transl Med 2016), which is already available in the mediation R
Giuseppe Biondi-Zoccai's user avatar
2 votes

How to calculate mean and standard deviation from median and quartiles

There is a detailed publication on this topic from Greco et al, How to impute study-specific standard deviations in meta-analyses of skewed continuous endpoints? World Journal of Meta-Analysis 2015;3( …
Giuseppe Biondi-Zoccai's user avatar
0 votes

Visualize survival analysis with time dependent covariates

In addition, there is now the possibility to compute the Mantel-Byar test and accompanying Simon-Makuch plot in R, using the Rcmdr and the RcmdrPlugin.EZR packages. … See the related SO post containing a detailed R code: https://stackoverflow.com/questions/40431559/mantel-byar-test-and-simon-makuch-plot-for-survival-analysis-with-time-dependent …
Giuseppe Biondi-Zoccai's user avatar
6 votes
1 answer
4k views

Which is the best graph to describe a survival analysis with a time-dependent covariate?

My packages of choice would be R or Stata. References Dafni U. Landmark analysis at the 25-year landmark point. Circulation: Cardiovascular Quality and Outcomes 2011;4:363-71. Ying Z, Wei LJ. … Simon R, Makuch RW. A non-parametric graphical representation of the relationship between survival and the occurrence of an event: Application to responder versus non-responder bias. …
Giuseppe Biondi-Zoccai's user avatar
4 votes

Propensity Score Matching for more than 2 groups

There are already some overlapping Q&A in CV that you might wish to look at: Propensity Score Matching in R with Multiple Treatments Software that matches 6 groups by propensity score? … Comparing two or more treatments with inverse probablity of treatment weighting My advice would be to use the twang R package. …
Giuseppe Biondi-Zoccai's user avatar
1 vote
0 answers
190 views

Most reliable method to compute 95% confidence intervals of proportions for small samples

I am planning a prospective trial for CE mark of a new cardiovascular device, and wish to use 95% confidence intervals to present, once data are collected, the inferential estimate for the occurrence …
Giuseppe Biondi-Zoccai's user avatar
3 votes
2 answers
92 views

Appraise inconsistency (e.g. I-squared) in individual patient data meta-analysis

I am working on an individual patient data meta-analysis, using a Cox proportional hazard model, with and without taking into account study identification, in Stata and R. …
Giuseppe Biondi-Zoccai's user avatar
6 votes

Odds ratio meta analysis with no control group

Once you have for each study the point estimate and the standard error, it is easy to combine them with a statistical package (eg metan in Stata, meta or metafor in R). … Note indeed that the R meta package offers the metaprop command which will directly suit you, as clarified by this illustrative code: library(meta) studyid <- c(1:10) events <- sample(5:20, 10, replace …
Giuseppe Biondi-Zoccai's user avatar
4 votes
1 answer
981 views

Using limited independent variables in a multivariable regression model

In particular, I am giving below an example of the dataset and the possible analysis in R (disregard the overfitting, it's just to make an example, my actual dataset has at least 10,000 cases): dep <- …
Giuseppe Biondi-Zoccai's user avatar
3 votes
1 answer
798 views

Confidence interval of AUC with Reitsma model in mada R package

I am conducting a meta-analysis of diagnostic test accuracy studies comparing myocardial perfusion scintigraphy vs coronary angiography using the mada R package. …
Giuseppe Biondi-Zoccai's user avatar

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