Re: [R] Dataframes and text identifier columns
Hi.
Well, Case is probably factor, which is basically numeric vector with labels.
It is useful for some operations but it can have some features which lead to
this behaviour. I do not have available your exact code but I presume you use c
or cbind somewhere.
> Case<-factor(letters[1:4])
> Case
[1] a b c d
Levels: a b c d
> c(Case, 1)
[1] 1 2 3 4 1
> cbind(Case, rep(1,4))
Case
[1,]1 1
[2,]2 1
[3,]3 1
[4,]4 1
You can try to change Case to character by as.character(Case) before cycle.
Regards
Petr
> -Original Message-
> From: r-help-boun...@r-project.org [mailto:r-help-bounces@r-
> project.org] On Behalf Of Brian Willis
> Sent: Thursday, July 03, 2014 12:07 PM
> To: r-help@r-project.org
> Subject: Re: [R] Dataframes and text identifier columns
>
> Thank you for the suggestion
>
> What seems to work is assigning out_put$Case <- Inp_dat$Case
> that is
>
> for(i in 1:4)
> {
> ...
> Case<- Inp_dat$Case[i]
> …
>
> out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
>
> }
>
> out_put$Case <- Inp_dat$Case
>
> out_put
>
> What I don't understand is why I need to do this, and why adding rows
> to out_put[i,] within the loop the Case column has an integer label
> assigned and not the text label.
>
> Further it seems I cannot correct this within the loop?
>
>
>
>
>
> --
> View this message in context: http://r.789695.n4.nabble.com/Dataframes-
> and-text-identifier-columns-tp4693184p4693443.html
> Sent from the R help mailing list archive at Nabble.com.
>
> __
> R-help@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-
> guide.html
> and provide commented, minimal, self-contained, reproducible code.
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Re: [R] Dataframes and text identifier columns
Thank you for the suggestion
What seems to work is assigning out_put$Case <- Inp_dat$Case
that is
for(i in 1:4)
{
...
Case<- Inp_dat$Case[i]
…
out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
}
out_put$Case <- Inp_dat$Case
out_put
What I don't understand is why I need to do this, and why adding rows to
out_put[i,] within the loop the Case column has an integer label assigned
and not the text label.
Further it seems I cannot correct this within the loop?
--
View this message in context:
http://r.789695.n4.nabble.com/Dataframes-and-text-identifier-columns-tp4693184p4693443.html
Sent from the R help mailing list archive at Nabble.com.
__
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] Dataframes and text identifier columns
Hi
What is the problem?
some comments in line
> -Original Message-
> From: r-help-boun...@r-project.org [mailto:r-help-bounces@r-
> project.org] On Behalf Of Brian Willis
> Sent: Wednesday, July 02, 2014 1:33 PM
> To: r-help@r-project.org
> Subject: Re: [R] Dataframes and text identifier columns
>
> Apologies I was trying to simplify the programme and missed out four
> input files. The files on Andrew, Burt, Charlie and Dave have the same
> format of one factor and 13 numeric variables with repeated
> measurements eg.
> Study v1 v2 v3 v4 v5 v6 v7 v8 v9
> v10 v11
> v12 v13
> A 153 4.0 2.002.00145.00 0.670.0149.00 0.34
> 0.04
> 0.96-3.24 0.04
> B 96 33 3.0 13.047.00.9 0.2 4.2 0.1
> 0.5 0.5
> -0.7-0.7
>
> Inp_dat is
> Case r p SE n
> Andrew0.030.010.0004 500
> Burt 0.080.111 0.0450
> Charlie 0.040.022 0.0005 200
> Dave 0.2 0.028 0.006 85
>
> out_put starts as empty data frame and rows are added incrementally one
> for Andrew, one for Burt etc.
> If the code is
> Andrew<-read.csv("/File /Andrew.csv")
> Burt<-read.csv("/File /Burt.csv")
> Charlie<-read.csv("/File /Charlie.csv")
> Dave<-read.csv("/File /Dave.csv")
>
> Inp_dat<- read.csv("/File/Input data.csv")
>
>
> out_put<-data.frame(Case=character(), StdL=numeric(), StdPP=numeric(),
> StdSE=numeric(), L=numeric(), MRPP=numeric(), MRSE=numeric(),
> stringsAsFactors=FALSE)
>
> for(i in 1:4)
> {
> if (i==1) b<-Andrew
> if (i==2) b<-Burt
> if (i==3) b<-Charlie
> if (i==4) b<-Dave
^
you do not use b in your further code so this is not necessary
>
> pr <- Inp_dat$p[i]
> SE_pr <- Inp_dat$SE[i]
> r<- Inp_dat$r[i]
> n<- Inp_dat$n[i]
> Case<- Inp_dat$Case[i]
> …
>
> out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
>
> }
> out_put
>
> Case StdL StdPP StdSE L
> MRPPMRSE
> 11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
> 0.03804692
> 22 2.3341300.22566939 0.089626625.0957030.3888451
> 0.08399101
> 33 2.5886780.05502765 0.00454159 42.058326 0.4861511
> 0.02128030
> 44 7.8578980.18457822 0.043722974.7054870.1193687
> 0.01921609
>
>
>
> The Cases are labelled as integers 1 corresponding to Andrew, 2
> corresponding to Burt etc. instead of the intended text labels Andrew,
> Burt, Charlie and Dave.
If you want to change Case to labels just use
out_put$Case <- factor(out_put$Case), labels(Inp_dat$Case))
Regards
Petr
>
> Note all other columns are correct. Furthermore
>
> str(Case)
> Factor w/ 4 levels "Andrew","Burt",..: 4
>
> str(out_put)
>
> 'data.frame': 4 obs. of 7 variables:
> $ Case : chr "1" "2" "3" "4"
> $ StdL : num 19.47 2.33 2.59 7.86
> etc
>
>
> I have tried changing the line
>
> Case<- Inp_dat$Case[i]
> to
>
> Case<- levels(Inp_dat$Case)[i]
>
> and this gives the following output
>
> Case StdL StdPP StdSE L
> MRPPMRSE
> 11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
> 0.03804692
> 21 2.3341300.22566939 0.089626625.0957030.3888451
> 0.08399101
> 31 2.5886780.05502765 0.00454159 42.058326 0.4861511
> 0.02128030
> 41 7.8578980.18457822 0.043722974.7054870.1193687
> 0.01921609
>
> str(Case)
>
> chr "Dave"
>
> and
>
> str(out_put)
>
> 'data.frame': 4 obs. of 7 variables:
> $ Case : chr "1" "1" "1" "1"
> $ StdL : num 19.47 2.33 2.59 7.86
> etc
>
>
> I’ve also tried adding, as suggested the stringsAsFactors=FALSE to the
> Inp_dat<- read.csv("/File/Input data.csv", stringsAsFactors=FALSE)
>
> This gives the same as the 2nd output above.
>
>
>
>
> --
> View this message in context: http://r.789695.n4.nabble.com/Dataframes-
> and-text-identifier-columns-tp4693184p4693389.html
> Sent from the R help mailing list archive at Nabble.com.
>
> __
> 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 co
Re: [R] Dataframes and text identifier columns
Apologies I was trying to simplify the programme and missed out four input
files. The files on Andrew, Burt, Charlie and Dave have the same format of
one factor and 13 numeric variables with repeated measurements eg.
Study v1 v2 v3 v4 v5 v6 v7 v8 v9
v10 v11 v12 v13
A 153 4.0 2.002.00145.00 0.670.0149.00 0.34
0.040.96-3.24 0.04
B 96 33 3.0 13.047.00.9 0.2 4.2 0.1
0.5 0.5 -0.7-0.7
Inp_dat is
Caser p SE n
Andrew 0.030.010.0004 500
Burt0.080.111 0.0450
Charlie 0.040.022 0.0005 200
Dave0.2 0.028 0.006 85
out_put starts as empty data frame and rows are added incrementally one for
Andrew, one for Burt etc.
If the code is
Andrew<-read.csv("/File /Andrew.csv")
Burt<-read.csv("/File /Burt.csv")
Charlie<-read.csv("/File /Charlie.csv")
Dave<-read.csv("/File /Dave.csv")
Inp_dat<- read.csv("/File/Input data.csv")
out_put<-data.frame(Case=character(), StdL=numeric(), StdPP=numeric(),
StdSE=numeric(), L=numeric(), MRPP=numeric(), MRSE=numeric(),
stringsAsFactors=FALSE)
for(i in 1:4)
{
if (i==1) b<-Andrew
if (i==2) b<-Burt
if (i==3) b<-Charlie
if (i==4) b<-Dave
pr <- Inp_dat$p[i]
SE_pr <- Inp_dat$SE[i]
r<- Inp_dat$r[i]
n<- Inp_dat$n[i]
Case<- Inp_dat$Case[i]
…
out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
}
out_put
Case StdL StdPP StdSE L
MRPPMRSE
11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
0.03804692
22 2.3341300.22566939 0.089626625.0957030.3888451
0.08399101
33 2.5886780.05502765 0.00454159 42.058326 0.4861511
0.02128030
44 7.8578980.18457822 0.043722974.7054870.1193687
0.01921609
The Cases are labelled as integers 1 corresponding to Andrew, 2
corresponding to Burt etc. instead of the intended text labels Andrew, Burt,
Charlie and Dave.
Note all other columns are correct. Furthermore
str(Case)
Factor w/ 4 levels "Andrew","Burt",..: 4
str(out_put)
'data.frame': 4 obs. of 7 variables:
$ Case : chr "1" "2" "3" "4"
$ StdL : num 19.47 2.33 2.59 7.86
etc
I have tried changing the line
Case<- Inp_dat$Case[i]
to
Case<- levels(Inp_dat$Case)[i]
and this gives the following output
Case StdL StdPP StdSE L
MRPPMRSE
11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
0.03804692
21 2.3341300.22566939 0.089626625.0957030.3888451
0.08399101
31 2.5886780.05502765 0.00454159 42.058326 0.4861511
0.02128030
41 7.8578980.18457822 0.043722974.7054870.1193687
0.01921609
str(Case)
chr "Dave"
and
str(out_put)
'data.frame': 4 obs. of 7 variables:
$ Case : chr "1" "1" "1" "1"
$ StdL : num 19.47 2.33 2.59 7.86
etc
I’ve also tried adding, as suggested the stringsAsFactors=FALSE to the
Inp_dat<- read.csv("/File/Input data.csv", stringsAsFactors=FALSE)
This gives the same as the 2nd output above.
--
View this message in context:
http://r.789695.n4.nabble.com/Dataframes-and-text-identifier-columns-tp4693184p4693389.html
Sent from the R help mailing list archive at Nabble.com.
__
R-help@r-project.org mailing list
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Dataframes and text identifier columns
please stay on list. I am returning this to the list.
David's comment that b is never used might be relevant.
I think the next step is for you to post a small dataset that causes the problem
dput(head(Inp_dat))
might be enough.
Rich
On Sun, Jun 29, 2014 at 3:11 PM, Brian Willis wrote:
> Hi
>
> This does not work either. Comes up with same result
>
> Regards
>
> Brian
>
> **
>
> Dr Brian H Willis
> NIHR Clinical Lecturer
> Primary Care Clinical Sciences
> University of Birmingham
> Edgbaston
> Birmingham. B15 2TT
> tel +44 121 414 7979
> b.h.wil...@bham.ac.uk
> http://www.birmingham.ac.uk/brian-willis
>
>
> From: Richard M. Heiberger [r...@temple.edu]
> Sent: 29 June 2014 18:34
> To: Brian Willis
> Cc: r-help
> Subject: Re: [R] Dataframes and text identifier columns
>
> Inp_dat<- read.csv("/File/Input data.csv")
> out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
>
> These two statements look like the source of the problem.
> Add the optional argument
> stringsAsFactors=FALSE
> to both.
> Rich
>
> On Sun, Jun 29, 2014 at 8:46 AM, Brian Willis wrote:
>> I am trying to incrementally add rows to an empty data frame. The data has 7
>> columns, the last 6 are numeric.
>>
>> For the first columns I would like to include a text identifier, called
>> ‘Case’ like Andrew, Burt, Charlie etc. that is also output to a data frame –
>> this is where I am having the problem
>>
>> The identifiers are being input from file which automatically assigns them
>> to a data frame
>> Code:
>>
>> Inp_dat<- read.csv("/File/Input data.csv")
>>
>> out_put<-data.frame(Case=character(), StdL=numeric(), StdPP=numeric(),
>> StdSE=numeric(), L=numeric(), MRPP=numeric(), MRSE=numeric(),
>> stringsAsFactors=FALSE)
>>
>> for(i in 1:4)
>> {
>> if (i==1) b<-Andrew
>> if (i==2) b<-Burt
>> if (i==3) b<-Charlie
>> if (i==4) b<-Dave
>>
>> pr <- Inp_dat$p[i]
>> SE_pr <- Inp_dat$SE[i]
>> r<- Inp_dat$r[i]
>> n<- Inp_dat$n[i]
>> Case<- levels(Inp_dat$Case)[i])
>> …
>>
>> out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
>>
>> }
>> out_put
>>
>> Case StdL StdPP StdSE L
>> MRPPMRSE
>> 11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
>> 0.03804692
>> 21 2.3341300.22566939 0.089626625.0957030.3888451
>> 0.08399101
>> 31 2.5886780.05502765 0.00454159 42.058326 0.4861511
>> 0.02128030
>> 41 7.8578980.18457822 0.043722974.7054870.1193687
>> 0.01921609
>>
>>
>> Unfortunately the Case column loses the labels Andrew, Burt …
>>
>> I’ve tried always to keep these, but are clearly doing something wrong. Can
>> anyone help?
>>
>>
>>
>>
>> --
>> View this message in context:
>> http://r.789695.n4.nabble.com/Dataframes-and-text-identifier-columns-tp4693184.html
>> Sent from the R help mailing list archive at Nabble.com.
>>
>> __
>> 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-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] Dataframes and text identifier columns
Inp_dat<- read.csv("/File/Input data.csv")
out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
These two statements look like the source of the problem.
Add the optional argument
stringsAsFactors=FALSE
to both.
Rich
On Sun, Jun 29, 2014 at 8:46 AM, Brian Willis wrote:
> I am trying to incrementally add rows to an empty data frame. The data has 7
> columns, the last 6 are numeric.
>
> For the first columns I would like to include a text identifier, called
> ‘Case’ like Andrew, Burt, Charlie etc. that is also output to a data frame –
> this is where I am having the problem
>
> The identifiers are being input from file which automatically assigns them
> to a data frame
> Code:
>
> Inp_dat<- read.csv("/File/Input data.csv")
>
> out_put<-data.frame(Case=character(), StdL=numeric(), StdPP=numeric(),
> StdSE=numeric(), L=numeric(), MRPP=numeric(), MRSE=numeric(),
> stringsAsFactors=FALSE)
>
> for(i in 1:4)
> {
> if (i==1) b<-Andrew
> if (i==2) b<-Burt
> if (i==3) b<-Charlie
> if (i==4) b<-Dave
>
> pr <- Inp_dat$p[i]
> SE_pr <- Inp_dat$SE[i]
> r<- Inp_dat$r[i]
> n<- Inp_dat$n[i]
> Case<- levels(Inp_dat$Case)[i])
> …
>
> out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
>
> }
> out_put
>
> Case StdL StdPP StdSE L
> MRPPMRSE
> 11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
> 0.03804692
> 21 2.3341300.22566939 0.089626625.0957030.3888451
> 0.08399101
> 31 2.5886780.05502765 0.00454159 42.058326 0.4861511
> 0.02128030
> 41 7.8578980.18457822 0.043722974.7054870.1193687
> 0.01921609
>
>
> Unfortunately the Case column loses the labels Andrew, Burt …
>
> I’ve tried always to keep these, but are clearly doing something wrong. Can
> anyone help?
>
>
>
>
> --
> View this message in context:
> http://r.789695.n4.nabble.com/Dataframes-and-text-identifier-columns-tp4693184.html
> Sent from the R help mailing list archive at Nabble.com.
>
> __
> 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-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] Dataframes and text identifier columns
On Jun 29, 2014, at 5:46 AM, Brian Willis wrote:
I am trying to incrementally add rows to an empty data frame. The
data has 7
columns, the last 6 are numeric.
For the first columns I would like to include a text identifier,
called
‘Case’ like Andrew, Burt, Charlie etc. that is also output to a data
frame –
this is where I am having the problem
The identifiers are being input from file which automatically
assigns them
to a data frame
Code:
Inp_dat<- read.csv("/File/Input data.csv")
out_put<-data.frame(Case=character(), StdL=numeric(), StdPP=numeric(),
StdSE=numeric(), L=numeric(), MRPP=numeric(), MRSE=numeric(),
stringsAsFactors=FALSE)
for(i in 1:4)
{
if (i==1) b<-Andrew # these assignments do not appear to ever get
used.
if (i==2) b<-Burt
if (i==3) b<-Charlie
if (i==4) b<-Dave
pr <- Inp_dat$p[i]
SE_pr <- Inp_dat$SE[i]
r<- Inp_dat$r[i]
n<- Inp_dat$n[i]
Case<- levels(Inp_dat$Case)[i])
# Since the question involves failure of this step, there woudn't
appear to be much we could say unless you provided teh output of
levels(Inp_dat$Case).
…
out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
The values stdL through PP_SE seem to come from someplace else.
}
out_put
Case StdL StdPP StdSE L
MRPPMRSE
11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
0.03804692
21 2.3341300.22566939 0.089626625.0957030.3888451
0.08399101
31 2.5886780.05502765 0.00454159 42.058326 0.4861511
0.02128030
41 7.8578980.18457822 0.043722974.7054870.1193687
0.01921609
Unfortunately the Case column loses the labels Andrew, Burt …
If you were thinking that the values Andrew and Burt would come from
that loop then it's unclear whay tha twould be so since the value of
"b" is never used after it is defined.
I’ve tried always to keep these, but are clearly doing something
wrong. Can
anyone help?
David Winsemius, MD
Alameda, CA, USA
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[R] Dataframes and text identifier columns
I am trying to incrementally add rows to an empty data frame. The data has 7
columns, the last 6 are numeric.
For the first columns I would like to include a text identifier, called
‘Case’ like Andrew, Burt, Charlie etc. that is also output to a data frame –
this is where I am having the problem
The identifiers are being input from file which automatically assigns them
to a data frame
Code:
Inp_dat<- read.csv("/File/Input data.csv")
out_put<-data.frame(Case=character(), StdL=numeric(), StdPP=numeric(),
StdSE=numeric(), L=numeric(), MRPP=numeric(), MRSE=numeric(),
stringsAsFactors=FALSE)
for(i in 1:4)
{
if (i==1) b<-Andrew
if (i==2) b<-Burt
if (i==3) b<-Charlie
if (i==4) b<-Dave
pr <- Inp_dat$p[i]
SE_pr <- Inp_dat$SE[i]
r<- Inp_dat$r[i]
n<- Inp_dat$n[i]
Case<- levels(Inp_dat$Case)[i])
…
out_put[i,]<-data.frame(Case, stdL, stdPP, stdSE, L, PP, PP_SE)
}
out_put
Case StdL StdPP StdSE L
MRPPMRSE
11 19.466823 0.16432300 0.03137456 26.002294 0.2080145
0.03804692
21 2.3341300.22566939 0.089626625.0957030.3888451
0.08399101
31 2.5886780.05502765 0.00454159 42.058326 0.4861511
0.02128030
41 7.8578980.18457822 0.043722974.7054870.1193687
0.01921609
Unfortunately the Case column loses the labels Andrew, Burt …
I’ve tried always to keep these, but are clearly doing something wrong. Can
anyone help?
--
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