r-sig-epi@r-project.org discussions

0	[R-sig-Epi] ageadjust.direct

Hi there, I need help on how to practically use this function. The directions on epitools did not help me. Is there anyone to help? If yes, I will describe the problems. Best,Shams [[alternative HTML ...

Ahmad Zia Shams
Jun 3, 2016 at 3:31 pm
Jun 3, 2016 at 3:31 pm

2	[R-sig-Epi] How to interpret the results of PCA with sampling weights

Hello everyone, I have a dataset from a household survey, with sampling weights, and I wanted to create an assets-based indicator of economic level for the households. The idea was to run PCA (with ...

Leonardo Ferreira Fontenelle
Apr 26, 2016 at 7:17 pm
Apr 30, 2016 at 2:41 am

0	[R-sig-Epi] Hackout 3 is on!

Dear all, it is my pleasure to advertise *Hackout3*, a follow-up on the last two hackathons organised within the MRC Centre for Outbreak Analysis and Modelling at Imperial College, for designing ...

Thibaut Jombart
Mar 14, 2016 at 3:44 pm
Mar 14, 2016 at 3:44 pm

0	[R-sig-Epi] Epi 2.0 out now

Dear list members, We have just released Epi 2.0 on CRAN, so you should be able to upgrade. Moreover, the traditional SPE course in Tartu, Estonia have now been fixed to the dates Fri 17th - Wed 22nd ...

BXC (Bendix Carstensen)
Jan 8, 2016 at 10:31 am
Jan 8, 2016 at 10:31 am

0	[R-sig-Epi] Log-Rank Test on Relative Survival

Hello All, I have another question regarding using the relsurv package. I am trying to run a log-rank test to compare across the strata in my relative survival plots. So far I am able to compute ...

Josh Rosen
Dec 8, 2015 at 10:38 pm
Dec 8, 2015 at 10:38 pm

1	[R-sig-Epi] Relative Survival in R - Getting 5 year and Median Survival

Hello, I am trying to compute the relative survival curves for a cohort of cancer patients that I have data on. I have been trying to use some of the elements of the relsurv package and have gotten ...

Josh Rosen
Nov 6, 2015 at 1:15 pm
Nov 7, 2015 at 7:35 am

0	[R-sig-Epi] Epi 1.1.71 is now out

Dear all, the latest version of Epi, version 1.1.71 is now avialble on CRAN. best regards, Bendix Carstesen, maintainer The changes since 1.1.60 (the previous version on CRAN was 1.1.67) are: Changes ...

BXC (Bendix Carstensen)
Sep 19, 2015 at 3:16 pm
Sep 19, 2015 at 3:16 pm

1	[R-sig-Epi] Zero-inflated poisson regression models with sampling weights.

Dear All I am using survey package in R for my design based analysis. I want to do zero inflated analysis for my count data with many zero values. Please advice how can I run Zero inflated Poisson ...

Mohd Masood
May 21, 2015 at 2:25 pm
May 21, 2015 at 3:12 pm

0	[R-sig-Epi] multifactor dimensionality reduction usage

Hi, everyone! I heard that multifactor dimensionality reduction (MDR) is used to analyze gene-gene interaction and gene-environment interaction, I want to know whether MDR can be used to analyze ...

Ting Zhang
Feb 24, 2015 at 4:24 am
Feb 24, 2015 at 4:24 am

8	[R-sig-Epi] coxphf with frailty, Firth's correction

Hi all, I'm fitting a coxph gamma frailty model to simulated survival data and running into situations where I have 0 events in one covariate class and the model won't converge. I'd still like a ...

Steve Bellan
Feb 13, 2015 at 1:50 am
Feb 16, 2015 at 4:35 am

0	[R-sig-Epi] Tomorrow Webinar: Enter a KDD Cup or Kaggle Competition without being an expert!

Webinar: Enter a KDD Cup or Kaggle Competition, You don't need to be an expert! Tomorrow, January 13, 2015 from 10am-11am PDT * If inconvenient time, please register and we will send you a ...

Lisa Solomon
Jan 12, 2015 at 8:14 pm
Jan 12, 2015 at 8:14 pm

1	[R-sig-Epi] propensity score code

Hi, this is the first time I send a mail, and thanks in advance. I am eager to obtain the R code for propensity score analysis. Previously, I used SAS for this, but I converted to R these days since ...

Ting Zhang
Nov 20, 2014 at 11:54 pm
Nov 27, 2014 at 6:22 am

0	[R-sig-Epi] (mapplots): adding labels in draw.pie from a data.frame

Hi, (first of all: sorry for my english...) I need to plot some pie charts on a map (one over each region) but I don't know how to use two colomns from a data.frame as text: can you help me to use ...

Gianpaolo Romeo
Sep 4, 2014 at 3:03 pm
Sep 4, 2014 at 3:03 pm

1	[R-sig-Epi] I'd like to add you to my professional network on LinkedIn

Hi , I'd like to add you to my professional network on LinkedIn. - Ajit Accept ...

Ajit de Silva
Aug 7, 2014 at 9:23 pm
Aug 7, 2014 at 11:29 pm

1	[R-sig-Epi] APC models with covariates

Dear all, Is it possible to use the Epi package to fit APC models with additional covariates? I've used other approaches, but really enjoy the convenience functions for visualisation in Epi, and so ...

Gustaf Rydevik
Jul 24, 2014 at 3:29 pm
Jul 24, 2014 at 5:25 pm

0	[R-sig-Epi] block randomization

Dear all, I am using randomization. it's small sample i have 80 patients in two arms (40 in each arm). and stratified by 3 variable age(yes/No), surgery(Yes/No), kps(Yes No) with 8 block of 10 I am ...

Sugi jey
Jul 4, 2014 at 10:31 am
Jul 4, 2014 at 10:31 am

0	[R-sig-Epi] Epi 1.1.65 released

Dear list members, There is now a new version of the Epi package on CRAN, version 1.1.65, replacing 1.1.49. There have been quite a bit of changes and fixed since last version on CRAN, see below ...

BXC (Bendix Carstensen)
Jun 25, 2014 at 8:10 am
Jun 25, 2014 at 8:10 am

0	[R-sig-Epi] increasing memory allocation

Hello Sir/Madam, Does anyone familiar with the R-language for statistical computing know about increasing memory allocation. memory.size(max = NA) memory.limit(size = NA) This message contains ...

Tjoa, Thomas
Jun 24, 2014 at 9:57 pm
Jun 24, 2014 at 9:57 pm

0	[R-sig-Epi] problem with nb2listw( ) command

Dear all I am using scottish lip cancer data, which contains the columns of observed, expected, AFF(person at risk) and latitude and longitude. i use the commands ...

irum Amir
Apr 20, 2014 at 9:23 am
Apr 20, 2014 at 9:23 am

0	[R-sig-Epi] how to assess which Smooth estimates are relable?

i have applied different Empirical bayes methods i.e. poisson gamma, lognormal, Marshall and also CAR model on scottish lip cancer data. so obtain smooth estimates (relative risks). how to assess ...

irum Amir
Apr 8, 2014 at 4:39 pm
Apr 8, 2014 at 4:39 pm

0	[R-sig-Epi] Epidemiological Prevalence Assessment using R (Free Webinar this Tuesday)

Hello R Users, Are you interested in using R to perform prevalence assessment studies on epidemiological data? This free one-hour webinar will provide a general introduction to "prevalence", an R ...

Ray DiGiacomo, Jr.
Oct 20, 2013 at 11:46 pm
Oct 20, 2013 at 11:46 pm

0	[R-sig-Epi] R-sig-Epi Digest, Vol 68, Issue 2

thank you.i will read the book.good wishes.

董忠信
Sep 10, 2013 at 2:11 pm
Sep 10, 2013 at 2:11 pm

0	[R-sig-Epi] R-sig-Epi Digest, Vol 68, Issue 1

Well, I assume you are using the rms package. Calibration through bootstrap can be conducted through the val.surv function. Penalizing degrees of freedom can be conducted with the pentrace function ...

Pedro Emmanuel Alvarenga Americano do Brasil
Sep 9, 2013 at 12:32 pm
Sep 9, 2013 at 12:32 pm

0	[R-sig-Epi] help

hi, dear friend , i am dealing with a survival data for cancer. a variable progression doesn't satisfy PH assumption, i have tried the paramatric survival models, but they did not fit very well. at ...

董忠信
Sep 4, 2013 at 1:10 pm
Sep 4, 2013 at 1:10 pm

0	[R-sig-Epi] new package 'prevalence'

Dear list members, A new package, called *prevalence *(version 0.1.0), is now available on CRAN: http://cran.r-project.org/package=prevalence This package provides Frequentist and Bayesian methods ...

Brecht Devleesschauwer
Jul 8, 2013 at 8:42 pm
Jul 8, 2013 at 8:42 pm

0	[R-sig-Epi] Nested case-control, multiple matching factors

I would like to generated a nested case-control set, using multiple factors to match. I am using the ?ccwc? function, and while I apparently get the right behavior, I end up with a combo of misnamed ...

Albert V. Smith
May 7, 2013 at 1:11 pm
May 7, 2013 at 1:11 pm

0	[R-sig-Epi] Exposure data: mixed effects

Hi there, I've been having a few issues. My data set is as follows str(new.data)'data.frame': 345 obs. of 11 variables: $ WSZ_Code : int 2 6 7 7 7 5 1 5 8 1 ... $ Treatment_Code: int 3 1 4 4 4 2 2 2 ...

Omnia Abdulrazeg
May 2, 2013 at 3:41 pm
May 2, 2013 at 3:41 pm

0	[R-sig-Epi] Ploting crude trajectories - zap plot

R epi friends, Im conducting some initial longitudinal analysis of some biomarkers. I would like to have some idea of how the crude trajectories behave before the attempt to run marginal models. I ...

Pedro Emmanuel Alvarenga Americano do Brasil
Apr 2, 2013 at 2:44 am
Apr 2, 2013 at 2:44 am

0	[R-sig-Epi] Hands-on Webinar: Advances in Regression: Modern Ensemble and Data Mining Approaches (no charge)

Hands-on Webinar (no charge) Advances in Regression: Modern Ensemble and Data Mining Approaches **Part of the series: The Evolution of Regression from Classical Linear Regression to Modern Ensembles ...

Lisa Solomon
Mar 20, 2013 at 8:04 pm
Mar 20, 2013 at 8:04 pm

0	[R-sig-Epi] Reminder: New Webinar Series, The Evolution of Regression From Classical Linear Regression to Modern Ensembles (Hands-on Component)

Begins Friday (no charge) The Evolution of Regression: An Upcoming Webinar Series (Hands-on Component) Registration: http://bit.ly/salford-systems-regression-webinar-series Regression is one of the ...

Lisa Solomon
Feb 26, 2013 at 9:29 pm
Feb 26, 2013 at 9:29 pm

0	[R-sig-Epi] splitLexis

Hi Dimitis, You have a typo in the definition of the cohR Lexis object: It should be "age = doz-dob" , that is doz instead of doe. No need to call the timescale "age1" either, it just produces ...

BXC (Bendix Carstensen)
Feb 25, 2013 at 8:13 pm
Feb 25, 2013 at 8:13 pm

0	[R-sig-Epi] (no subject)

Hello to all, I have a problem using the Epi package and I would like your help. my data set looks like this: id date of born date of entry date of first screen date of exit the date of entry is ...

Dimitris m
Feb 25, 2013 at 3:52 pm
Feb 25, 2013 at 3:52 pm

0	[R-sig-Epi] Course: Statistical Practice in Epidemiology Using R

Course in: STATISTICAL PRACTICE IN EPIDEMIOLOGY USING R IARC, Lyon, Fance, Thursday 23 to Wednesday 29 May 2013. http://BendixCarstensen.com/SPE The course is intended for epidemiologists and ...

Martyn Plummer
Feb 22, 2013 at 11:47 am
Feb 22, 2013 at 11:47 am

0	[R-sig-Epi] High performance commuting and R analyses - request for help

Dear List Member, Firstly, apologies if you've received this request via multiple lists, this is just a brief announcement and request for help re. R and High Performance Computing. Over the past 3 ...

SPRINT
Feb 18, 2013 at 2:22 pm
Feb 18, 2013 at 2:22 pm

0	[R-sig-Epi] Epi 1.1.44

The Epi package have just been updated to 1.1.44, and is now on CRAN, http://cran.r-project.org/web/packages/Epi/index.html - a bug in ROC have been fixed. Now the AUC is computed correctly. - the ...

BXC (Bendix Carstensen)
Feb 8, 2013 at 8:31 am
Feb 8, 2013 at 8:31 am

0	[R-sig-Epi] Optmatch Package Question

Hello ,? My optmatch package is loaded on R and otherwise running fine.? I get an error after lcds successfully completes a logistic regression and? I then try to obtain a propensity score:? pdist <- ...

Bh1
Dec 21, 2012 at 12:30 am
Dec 21, 2012 at 12:30 am

0	[R-sig-Epi] (no subject)

submitted

Beiranvand
Dec 17, 2012 at 8:25 am
Dec 17, 2012 at 8:25 am

1	[R-sig-Epi] Webinar: Advances in Gradient Boosting: the Power of Post-Processing. TOMORROW, 10-11 a.m., PST

Webinar: Advances in Gradient Boosting: the Power of Post-Processing TOMORROW: December 14, 10-11 a.m., PST Webinar Registration: http://2.salford-systems.com/gradientboosting-and-post-processing/ ...

Lisa Solomon
Dec 13, 2012 at 7:16 pm
Dec 13, 2012 at 8:21 pm

0	[R-sig-Epi] Epi version 1.1.40 is now available

Dear all, An updated version, 1.1.40, of Epi is now available on CRAN. A number of small bugs have been fixed; the main amendments are: effx now allows RR for binary data (via the log-link for ...

BXC (Bendix Carstensen)
Nov 6, 2012 at 7:24 am
Nov 6, 2012 at 7:24 am

0	[R-sig-Epi] replace repeated id in a pedigree list

Hello, I have a pedigree file such this: FAMID ID FA ID MO ID SEX STATUS 1 1 0 0 2 0 1 2 3 1 2 2 1 4 3 1 1 2 1 5 3 1 1 0 1 6 3 1 1 0 1 7 3 1 2 2 1 8 3 1 1 0 1 9 3 1 1 0 1 10 3 1 2 0 1 11 3 1 1 0 1 3 ...

Roberta Carriero
Oct 29, 2012 at 6:10 pm
Oct 29, 2012 at 6:10 pm

0	[R-sig-Epi] Testing causal diagrams

R friends, Before coming to this post I did take a look at Rothman's book and Sklo's book, but not very iluminating so far. Recently I was challenged with a problem of causal diagrams. A partner o ...

Pedro Emmanuel Alvarenga Americano do Brasil
Sep 6, 2012 at 1:17 pm
Sep 6, 2012 at 1:17 pm

0	[R-sig-Epi] Importing XML new EpiData files

R friends, One the things that was limiting me to definitely move from 3.1 to new EpiData with new epx and epz format is that I was not able to import epx/epz data form within R. Currently, from a ...

Pedro Emmanuel Alvarenga Americano do Brasil
Jul 30, 2012 at 5:04 pm
Jul 30, 2012 at 5:04 pm

0	[R-sig-Epi] workflow for creating large tabular reports and sharing editable tables with colleagues who don't use LaTeX

Colleagues, Question: How do YOU create multi-page publication ready tables that can still be shared and potentially edited by coworkers who don't use LaTeX? I'm specifically looking for a solution ...

Jeffrey Miller
Jul 24, 2012 at 7:32 pm
Jul 24, 2012 at 7:32 pm

1	[R-sig-Epi] Gwet's AC1 Interrater reliability

R friends, with some help of a friend and the original author I turn available this function which is helping me in some analysis. Perhaps it may be useful to others... :-) 1. Gwet KL. Computing ...

Pedro Emmanuel Alvarenga Americano do Brasil
May 3, 2012 at 5:58 pm
May 4, 2012 at 9:58 am

0	[R-sig-Epi] Epidemiology/Biostat at Analytics & Data Mining Conference in San Diego, California, May 23-25

Don't miss it, it's this month! The 2012 Salford Analytics & Data Mining Conference aims to bring together researchers, practitioners, and data enthusiasts to exchange ideas and experiences ...

Lisa Solomon
May 2, 2012 at 8:23 pm
May 2, 2012 at 8:23 pm

1	[R-sig-Epi] Cosinor Model (Halberg, Bingham) - Multiple components - Linear, Quadratic and Cubic trends

Hello! I have a doubt in relation with the use of the cosinor model with R when I have not only multiple components, but also linear, quadratic and cubic trends. I explain the details: In simple ...

Iva P
Mar 18, 2012 at 10:21 am
Mar 18, 2012 at 10:48 am

1	[R-sig-Epi] Fwd: Need help to find multifactors influence‏

Dear friends, 1-I have B.I value (Dependent variable). 2-I have land cover types in the form of % area against each B.I (that was clipped through buffer for each B.I ). Buffer was put by considering ...

Muhammad Arshad
Feb 26, 2012 at 10:12 pm
Feb 26, 2012 at 11:22 pm

0	[R-sig-Epi] R-sig-Epi Digest, Vol 54, Issue 1

Taking a look at task views on survival analysis here: http://finzi.psych.upenn.edu/views/Survival.html it seems the package timereg may do what you want. Abraço forte e que a força esteja com você, ...

Pedro Emmanuel Alvarenga Americano do Brasil
Jan 12, 2012 at 8:28 pm
Jan 12, 2012 at 8:28 pm

0	[R-sig-Epi] Linear excess relative risk modelling in R

Dear List, I am attempting to carry out linear excess relative risk modelling for the purposes of a nested case-control study of nuclear industry workers. The majority of similar analyses in the ...

Grellier, James
Jan 11, 2012 at 1:08 pm
Jan 11, 2012 at 1:08 pm

0	[R-sig-Epi] Course: Age-Period-Cohort models, Lisbon, September 2011

Course on Age-Period-Cohort models. ================================== Place: Lisbon Time: Monday 19th - Wednesday 21st September 2011. Deadline: 1 September 2011 Fee: 380 EUR. Teacher: Bendix ...

BXC (Bendix Carstensen)
Jul 23, 2011 at 12:07 pm
Jul 23, 2011 at 12:07 pm

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