Dear R Friends, I'm a medical doctor with some knowledge about statistic and programming. I want to analysis and compare data of different countries with survival or popEpi tools in R. I couldn't able to make tables with one row for every people of countries without illness. I can made a data table look like as: time country at.risk from0to1 sk zf from0to0 1 AFG 40363639 1 K F 0 I try to prepare for analysis with survtab_ag function of Epi package. When I run st <- survtab_ag(time ~ cuntry, data = xxxx, surv.type "surv.obs",surv.breaks=list(xxxx$time), + surv.method = "lifetable", + d = "from0to1") I see just the error message: Error in sort.int(x, na.last = na.last, decreasing = decreasing, ...) : 'x' must be atomic Can any body help me for preparing this kind tabulated data without surv() to other survival functions? Best regards from Turkey Tanju Aktug [[alternative HTML version deleted]]
Hi I am not an expert and cannot give you canned solution, but here are few comments: Without knowing data structure it is hard to decipher where is the problem. So posting result of str(yourata) or at least part of it hardly anybody could help. Cuntry is typo? The error could by result of typo or not properly structured data. This is plain text mail list, please do not use HTML formating. Cheers Petr> -----Original Message----- > From: R-help <r-help-bounces at r-project.org> On Behalf Of Ergin Artun > Sent: Wednesday, May 20, 2020 2:01 PM > To: r-help at r-project.org > Subject: [R] survival anaylsis with tabulated data > > Dear R Friends, > > I'm a medical doctor with some knowledge about statistic and programming. > I want to analysis and compare data of different countries with survivalor> popEpi tools in R. > I couldn't able to make tables with one row for every people of countries > without illness. I can made a data table look like as: > > time > country at.risk from0to1 sk zf from0to0 > 1 AFG 40363639 1 K F 0 > > I try to prepare for analysis with survtab_ag function of Epi package.When> I run > st <- survtab_ag(time ~ cuntry, data = xxxx, surv.type > "surv.obs",surv.breaks=list(xxxx$time), > + surv.method = "lifetable", > + d = "from0to1") > I see just the error message: > Error in sort.int(x, na.last = na.last, decreasing = decreasing, ...) : > 'x' must be atomic > > Can any body help me for preparing this kind tabulated data without surv() > to other survival functions? > Best regards from Turkey > > Tanju Aktug > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see > 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.
Hallo I am not private consultant so please keep your messages on help list.>From help page I understand that the function survtab_ag needs to have **specially prepared** data as input. We could only guess if your data are in correct format and most probably they are not.Without knowing details I wonder if anybody is able to help you. Cheers Petr From: Ergin Artun <eartun2010 at gmail.com> Sent: Thursday, May 21, 2020 3:08 PM To: PIKAL Petr <petr.pikal at precheza.cz> Subject: Re: [R] survival anaylsis with tabulated data Dear Pical, I'm also not an expert and had a typo error while translating colum names at code. At my data set time(as day), at.risk(people), from0to1(as people with event), from0to0(censored values for the function) are integers, Country, and the other two columns are charecter strings. Best regards... Tanju PIKAL Petr <mailto:petr.pikal at precheza.cz>, 21 May 2020 Per, 12:53 tarihinde ?unu yazd?: Hi I am not an expert and cannot give you canned solution, but here are few comments: Without knowing data structure it is hard to decipher where is the problem. So posting result of str(yourata) or at least part of it hardly anybody could help. Cuntry is typo? The error could by result of typo or not properly structured data. This is plain text mail list, please do not use HTML formating. Cheers Petr> -----Original Message----- > From: R-help <mailto:r-help-bounces at r-project.org> On Behalf Of Ergin Artun > Sent: Wednesday, May 20, 2020 2:01 PM > To: mailto:r-help at r-project.org > Subject: [R] survival anaylsis with tabulated data > > Dear R Friends, > > I'm a medical doctor with some knowledge about statistic and programming. > I want to analysis and compare data of different countries with survivalor> popEpi tools in R. > I couldn't able to make tables with one row for every people of countries > without illness. I can made a data table look like as: > > time > country at.risk from0to1 sk zf from0to0 > 1 AFG 40363639 1 K F 0 > > I try to prepare for analysis with survtab_ag function of Epi package.When> I run > st <- survtab_ag(time ~ cuntry, data = xxxx, surv.type > "surv.obs",surv.breaks=list(xxxx$time), > + surv.method = "lifetable", > + d = "from0to1") > I see just the error message: > Error in http://sort.int(x, na.last = na.last, decreasing = decreasing, ...) : > 'x' must be atomic > > Can any body help me for preparing this kind tabulated data without surv() > to other survival functions? > Best regards from Turkey > > Tanju Aktug > > [[alternative HTML version deleted]] > > ______________________________________________ > mailto:R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see > 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.
http://adv-r.had.co.nz/Reproducibility.html http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example On Thu, 21 May 2020 at 09:16, PIKAL Petr <petr.pikal at precheza.cz> wrote:> Hallo > > I am not private consultant so please keep your messages on help list. > > From help page I understand that the function survtab_ag needs to have > **specially prepared** data as input. We could only guess if your data are > in correct format and most probably they are not. > > Without knowing details I wonder if anybody is able to help you. > > Cheers > Petr > > From: Ergin Artun <eartun2010 at gmail.com> > Sent: Thursday, May 21, 2020 3:08 PM > To: PIKAL Petr <petr.pikal at precheza.cz> > Subject: Re: [R] survival anaylsis with tabulated data > > Dear Pical, > I'm also not an expert and had a typo error while translating colum names > at code. > > At my data set time(as day), at.risk(people), from0to1(as people with > event), from0to0(censored values for the function) are integers, Country, > and the other two columns are charecter strings. > > Best regards... > Tanju > > PIKAL Petr <mailto:petr.pikal at precheza.cz>, 21 May 2020 Per, 12:53 > tarihinde ?unu yazd?: > Hi > > I am not an expert and cannot give you canned solution, but here are few > comments: > > Without knowing data structure it is hard to decipher where is the problem. > So posting result of > str(yourata) or at least part of it hardly anybody could help. > Cuntry is typo? > The error could by result of typo or not properly structured data. > > This is plain text mail list, please do not use HTML formating. > > Cheers > Petr > > > -----Original Message----- > > From: R-help <mailto:r-help-bounces at r-project.org> On Behalf Of Ergin > Artun > > Sent: Wednesday, May 20, 2020 2:01 PM > > To: mailto:r-help at r-project.org > > Subject: [R] survival anaylsis with tabulated data > > > > Dear R Friends, > > > > I'm a medical doctor with some knowledge about statistic and programming. > > I want to analysis and compare data of different countries with survival > or > > popEpi tools in R. > > I couldn't able to make tables with one row for every people of countries > > without illness. I can made a data table look like as: > > > > time > > country at.risk from0to1 sk zf from0to0 > > 1 AFG 40363639 1 K F 0 > > > > I try to prepare for analysis with survtab_ag function of Epi package. > When > > I run > > st <- survtab_ag(time ~ cuntry, data = xxxx, surv.type > > "surv.obs",surv.breaks=list(xxxx$time), > > + surv.method = "lifetable", > > + d = "from0to1") > > I see just the error message: > > Error in http://sort.int(x, na.last = na.last, decreasing = decreasing, > ...) : > > 'x' must be atomic > > > > Can any body help me for preparing this kind tabulated data without > surv() > > to other survival functions? > > Best regards from Turkey > > > > Tanju Aktug > > > > [[alternative HTML version deleted]] > > > > ______________________________________________ > > mailto:R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see > > 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-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see > 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. >-- John Kane Kingston ON Canada [[alternative HTML version deleted]]