search for: patientid

Hi, I was wondering if anyone could give me advice regarding using the lmer command in lme4 package to do logistic regression (mixed effects model). I use the following command lmer(ISH ~ArrayPathology2, random=~1|PatientID, data=HSDB4.noNA, family="binomial") where ISH is outcome(0 or 1), ArrayPathology2 is the variable of interest(factor), PatientID is random effect(factor), and HSDB4.noNA is the complete dataframe (column names ArrayPathology2, Patient ID and ISH etc) There are no NAs in the data. I ge...

...can't seem to wrap my head around it. So I turn to the experts. I have a text file with patient data that has incorrect dates of service. I need to update the dates of service in the text file with data that's in a dataframe. Data in the text file looks like this (call it PatRecs): PatientID #: 12345 Date of Service: 8/1/2017 . . . PatientID #: 12346 Date of Service: 8/2/2017 . . . The dots are other data. I'm just focused on the PatientID and DOS. The data in the data frame (call it DF) looks like Id2 DOS 12345, 8/3/2017 12346, 8/4/2017 etc. The lists for both a...

...derstand the meaning or, or the use for the inner= and outer= parameters in the call to groupedData. Can someone either explain the meaning of these parameters or refer me to a source that give a clear explanation? > fit0 <- lmer(THmean~INTRVNTN+factor(TimePtID)+INTRVNTN*factor(TimePtID)+(1|PatientID),data=smalldata) > sdgd <- groupedData(THmean~INTRVNTN+TimePtID+INTRVNTN*TimePtID|PatientID,data=smalldata) Warning messages: 1: In Ops.factor(INTRVNTN, TimePtID) : ?+? not meaningful for factors 2: In Ops.factor(INTRVNTN, TimePtID) : ?*? not meaningful for factors Thank you, John John D...

...around it. So I turn to the experts. > >I have a text file with patient data that has incorrect dates of >service. I need to update the dates of service in the text file with >data that's in a dataframe. > >Data in the text file looks like this (call it PatRecs): > >PatientID #: 12345 >Date of Service: 8/1/2017 >. > >. > >. > >PatientID #: 12346 >Date of Service: 8/2/2017 > >. > >. > >. > >The dots are other data. I'm just focused on the PatientID and DOS. > >The data in the data frame (call it DF) looks l...

...around it.? So I turn to the experts. > >I have a text file with patient data that has incorrect dates of >service.? I need to update the dates of service in the text file with >data that's in a dataframe. > >Data in the text file looks like this (call it PatRecs): > >PatientID #:? 12345 >Date of Service:? 8/1/2017 >. > >. > >. > >PatientID #:? 12346 >Date of Service: 8/2/2017 > >. > >. > >. > >The dots are other data.? I'm just focused on the PatientID and DOS. > >The data in the data frame (call it DF) looks l...

Hello, I'm new to R but wan't to use it to compute the statistics of my medical study. The study includes several parameters for a number of patients. Each parameter was assessed by a number of readers, once with a special condition, once without. Now I have a data.frame with colums like: PatientID, ReaderID, SpecialCond(yes/no), Parameter1, Parameter2..... the rows are not sorted, and the table is not complete (e.g. some readers didn't read all cases under all conditions). What I would like to do now is for example compute Cohen's Kappa (ckappa from package(psy)) for Parameter1 und...

...eaning or, or the use for the inner= and outer= parameters in the call to groupedData. Can someone either explain the meaning of these parameters or refer me to a source that give a clear explanation? > > >> fit0 <- lmer(THmean~INTRVNTN+factor(TimePtID)+INTRVNTN*factor(TimePtID)+(1|PatientID),data=smalldata) >> sdgd <- groupedData(THmean~INTRVNTN+TimePtID+INTRVNTN*TimePtID|PatientID,data=smalldata) > Warning messages: > 1: In Ops.factor(INTRVNTN, TimePtID) : ?+? not meaningful for factors > 2: In Ops.factor(INTRVNTN, TimePtID) : ?*? not meaningful for factors > &g...

...which includes 84 rows and 4313 columns. Starting from the 2nd row, each row represents a patient. The 1st column is for "arrayID" 2nd column is for "time" 3rd column is for "cancer" 4th column is for "patientID" Starting for the 5th columns, each column's ID is like "CTC_232B23", "RP11_181G12", "RP11_62M23"... I extract first 5 rows and 7 columns and get the data in below: arrayID time cancer patientID CTC_232B23 RP11_181G12 RP11_62M23 X1747...

...r (i in 1:length(universe)) { Counts[i,1] <- universe[i] %in% set1 Counts[i,2] <- universe[i] %in% set2 } vennDiagram( vennCounts(Counts),main=title,... ) } # How I draw the Venn diagram Venn2(cPostArrayHitsNames,cPreArrayHitsNames,names=c("Post","Pre"),title=PatientID) Unfortunately something like this doesn't work: VennPlot<-Venn2(cPostArrayHitsNames,cPreArrayHitsNames,names=c("Post","Pre"),title=PatientID) Apologies for the imprecise terminology. Thanks. GLC

...------------------------------------------- gene1 breast 10 100 1 gene2 breast 20 200 4 gene3 breast 30 50 5 gene4 breast 40 400 9 ................................ to the following format: patientID gene1 gene2 gene3 gene4............ ------------------------------------------- 1 10 20 30 40 2 100 200 50 400 3 1 4 5 9 any suggestions how to use reshape or other function to achieve this? t...

...gene tissue patient1 patient2 patient3............. _________________________________________________ gene1 breast 10 20 50 gene2 breast 20 40 60 gene3 breast 100 200 300 which i hope to convert to the following format: gene patientID value gene1 ----------------------------- gene1 1 10 10 gene1 2 20 20 gene1 3 50 100 gene2 1 20 10 gene2 2 40 20 gene2 3 60 100 the column "gene" is required and column "tissue" is not needed. I use the followin...

...tion: vocallGp1<-subset(vocallsub, Group==1) vocallGp2<-subset(vocallsub, Group==2) vocallGp3<-subset(vocallsub, Group==3) vocallGp4<-subset(vocallsub, Group==4) vocallGp5<-subset(vocallsub, Group==5) When I create the loop I get the following error: vocallsub<-vocall[c("PatientID","Group")] > > for(i in 1:length(vocallsub$Group)){vocallGrp[i]<-subset(vocallsub, Group==(i))} Error in vocallGrp[i] <- subset(vocallsub, Group == (i)) : object 'vocallGrp' not found This is my first time attempting to create a loop and am not sure what I am m...

...above to operate on certain columns of an entire data.frame ?* *2. How can I write a parametric R script (like a shell script in Linux) that reads a CSV file into a new R data.frame ? The commands I now issue manually are as follows:* ** *read.csv("file-name",header=T,skip=9)* *file-name$PatientID = paste(rep("file-name",length(file-name[,1])))* *names(file-names)= c("Amplitude","Phase", ....)* Thank you so much. Maura -- Maura E.M [[alternative HTML version deleted]]

...ary, and then back, may not seem worth it. Awk, again, wins. But the asciitobinary and binarytoascii statement ( there and back ) only takes 4 lines or so, so Vilno is really not that bad. Certain apsects of Vilno and SAS are a bit more user-friendly: Each column has a variable name, such as "PatientID". Awk uses $1, $2, $3 , as variable names for columns. Not user-friendly. In both Vilno and SAS (and SQL) the possibility of "MISSING" ( or "NULL" ) is built into the data values held in the columns. So you don't have to use separate boolean variables to track MISSING v...

This issue has been discussed on this list before but the solutions offerred are not satisfactory. So I thought I shall raise it again. I want to merge two datasets which have three common variables. These variables DO NOT have the same names in both the files. In addition, there are two variables with same name which do not necessarily have exactly same data. That is, there could be some

I tried to post this a few times last week and it seems to have got stuck somehow so I'm trying from a different email in the hope that works. If somehow this has appeared on the list 20 tiems and I never saw any of them I apologize ;-) I'm basically an R-newbie. But I am VERY computer literate. But this has me stumped... All the examples for using the rmeta package to create a

Hello All, Want very much to learn how to plot patient drug timelines. Trouble is I need to figure out how to do this today. So not much time for me to struggle with it. Hoping someone can just help me out a bit. Below are some sample data and code that produces what I think is the beginning of a very nice graph. Need to alter the code to: 1. Get the lines for the drugs to appear on the