Re: [R] Error Bar Issues
On Sun, Jun 6, 2010 at 12:51 AM, beloitstudent wrote:
>
> Thanks for the suggestion...but R still doesn't like it. Now I have 3 error
> messages. It seems to dislike my *err=y* command. I'm going to continue
> trying. Thanks for your help! If you happen to spot anything else, please
> let me know!
Off course, same problem: You're referring to an object y in your
command. But you have no object named y in your workspace, so R can't
continue.
Look at the help files:
?plotCI
You'll see you have to put quotation marks around y, like William
showed you. Next to that, please also define from which package you
use a plot. plotCI can be found in the gplots package and in the
plotrix package.
Cheers
Joris
Either you define all input for the function before you run it, or you
use the double quotes like William showed
>
> thanks!
> beloitstudent
>
>
> On Sat, Jun 5, 2010 at 5:16 PM, Joris FA Meys [via R] <
> ml-node+2244611-1554261936-278...@n4.nabble.com
>> wrote:
>
>> you can't refer to an argument within a function call. Try
>>
>> uiw <- Saline[,3]
>>
>> plotCI(x=Saline [,1],y=Saline [,2], uiw=uiw, liw=uiw, err=y, pch=21,
>> pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
>> xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
>> yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
>> font.lab=2, add=TRUE)
>>
>> Cheers
>> Joris
>>
>> On Sat, Jun 5, 2010 at 6:09 PM, beloitstudent <[hidden
>> email]>
>> wrote:
>>
>> >
>> > Hello all,
>> >
>> > I am an undergraduate student who is having syntax issues trying to get
>> > error bars on my graph.
>> >
>> > This is the data, which I assigned the name "Saline" to.
>> > Time Average SEM
>> > 1 -20 0.00 0.000
>> > 2
>> > 3 30 0.00 0.000
>> > 4 45 3.227902 0.7462524
>> > 5 60 5.04 1.1623944
>> > 6 80 6.107491 1.5027762
>> > 7 110 6.968231 1.3799637
>> > 8 140 7.325713 1.2282053
>> > 9 200 7.875194 1.1185175
>> > 10 260 6.513927 0.5386359
>> > 11 320 4.204342 0.6855906
>> >
>> > This is the command that I typed in to get my error bars.
>> >
>> > plotCI(x=Saline [,1],y=Saline [,2], uiw=Saline [,3], liw=uiw, err=y,
>> pch=21,
>> > pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
>> > xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
>> > yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
>> > font.lab=2, add=TRUE)
>> >
>> > And this is the error message I keep getting
>> > Error in plotCI(x = Saline[, 1], y = Saline[, 2], uiw = Saline[, 3], liw
>> =
>> > uiw, :
>> > object 'uiw' not found
>> > In addition: Warning message:
>> > In if (err == "y") z <- y else z <- x :
>> > the condition has length > 1 and only the first element will be used
>> >
>> > Now, to me, the command seems correct.
>> > I want the error bars to show up where the points on my graph are...so
>> the x
>> > coordinates should be my time (aka Saline [1]) and the y coordinates
>> should
>> > be my Averages (aka Saline [2]) and my upper and lower limits to my
>> > confidence interval should be the SEM from Saline [3], but something is
>> > wrong with this and I cannot figure out what it is. If anyone has
>> > suggestions I would be very grateful. Thanks for your help!
>> >
>> > beloitstudent
>> > --
>> > View this message in context:
>> http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244335.html
>> > Sent from the R help mailing list archive at Nabble.com.
>> >
>> > __
>> > [hidden email]
>> > 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.
>> >
>>
>>
>>
>> --
>> Ghent University
>> Faculty of Bioscience Engineering
>> Department of Applied mathematics, biometrics and process control
>>
>> tel : +32 9 264 59 87
>> [hidden email]
>> ---
>> Disclaimer : http://helpdesk.ugent.be/e-maildisclaimer.php
>>
>> __
>> [hidden email] 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.
>>
>>
>> --
>> View message @
>> http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244611.html
>> To unsubscribe from Error Bar Issues, click here< (link removed) ==>.
>>
>>
>>
>
> --
> View this message in context:
> http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244627.html
Re: [R] Error Bar Issues
Dear Beloitstudent;
Although Ben Bolker will have to give you the
definitive answer, the following will do what I
think you want to do.
library(plotrix) #for those of us who don't know where plotCI comes from
#give us the data:
Saline <- structure(list(Time = c(-20L, NA, 30L, 45L, 60L, 80L, 110L, 140L,
200L, 260L, 320L), Average = c(0, NA, 0, 3.227902, 5.04,
6.107491, 6.968231, 7.325713, 7.875194, 6.513927, 4.204342),
SEM = c(0, NA, 0, 0.7462524, 1.1623944, 1.5027762, 1.3799637,
1.2282053, 1.1185175, 0.5386359, 0.6855906)), .Names = c("Time",
"Average", "SEM"), class = "data.frame", row.names = c("1", "2",
"3", "4", "5", "6", "7", "8", "9", "10", "11"))
# First draw the points
plotCI(x=Saline [,1],y=Saline [,2], uiw=Saline [,3], err="y",
pt.bg=par("bg"),pch=21, cex=1.5 ,gap=0, sfrac=0.005,
xlim=c(-20,340),xaxp=c(-20,320,17), xlab="Time (min)", ylim=c(0,12),
yaxp=c(0,12,12), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
font.lab=2)#draws the points
plotCI(x=Saline [,1],y=Saline [,2], uiw=Saline [,3], err="y",
pt.bg=par("bg"),pch=21, cex=1.5 ,gap=0, sfrac=0.005,
xlim=c(-20,340),xaxp=c(-20,320,17), ylim=c(0,12),
yaxp=c(0,12,12), las=1,
font.lab=2,add=TRUE,type="o") #puts the lines in and gives a message
You will get a warning message the type is
obsolete, but at least you have your graph.
Bill
At 3:51 PM -0700 6/5/10, beloitstudent wrote:
Content-Type: text/plain
Content-Disposition: inline
Content-length: 4586
Thanks for the suggestion...but R still doesn't like it. Now I have 3 error
messages. It seems to dislike my *err=y* command. I'm going to continue
trying. Thanks for your help! If you happen to spot anything else, please
let me know!
thanks!
beloitstudent
On Sat, Jun 5, 2010 at 5:16 PM, Joris FA Meys [via R] <
ml-node+2244611-1554261936-278...@n4.nabble.com
wrote:
you can't refer to an argument within a function call. Try
uiw <- Saline[,3]
plotCI(x=Saline [,1],y=Saline [,2], uiw=uiw, liw=uiw, err=y, pch=21,
pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
font.lab=2, add=TRUE)
Cheers
Joris
On Sat, Jun 5, 2010 at 6:09 PM, beloitstudent
<[hidden
email]>
wrote:
>
> Hello all,
>
> I am an undergraduate student who is having syntax issues trying to get
> error bars on my graph.
>
> This is the data, which I assigned the name "Saline" to.
> Time Average SEM
> 1 -20 0.00 0.000
> 2
> 330 0.00 0.000
> 445 3.227902 0.7462524
> 560 5.04 1.1623944
> 680 6.107491 1.5027762
> 7 110 6.968231 1.3799637
> 8 140 7.325713 1.2282053
> 9 200 7.875194 1.1185175
> 10 2606.513927 0.5386359
> 11 3204.204342 0.6855906
>
> This is the command that I typed in to get my error bars.
>
> plotCI(x=Saline [,1],y=Saline [,2], uiw=Saline [,3], liw=uiw, err=y,
pch=21,
> pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
> xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
> yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
> font.lab=2, add=TRUE)
>
> And this is the error message I keep getting
> Error in plotCI(x = Saline[, 1], y = Saline[, 2], uiw = Saline[, 3], liw
=
> uiw, :
> object 'uiw' not found
> In addition: Warning message:
> In if (err == "y") z <- y else z <- x :
> the condition has length > 1 and only the first element will be used
>
> Now, to me, the command seems correct.
> I want the error bars to show up where the points on my graph are...so
the x
> coordinates should be my time (aka Saline [1]) and the y coordinates
> should
> be my Averages (aka Saline [2]) and my upper and lower limits to my
> confidence interval should be the SEM from Saline [3], but something is
> wrong with this and I cannot figure out what it is. If anyone has
> suggestions I would be very grateful. Thanks for your help!
>
> beloitstudent
> --
> View this message in context:
http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244335.html
> Sent from the R help mailing list archive at Nabble.com.
>
> __
> [hidden email]
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.
>
--
Ghent University
Faculty of Bioscience Engineering
Department of Applied mathematics, biometrics and process control
tel : +32 9 264 59 87
[hidden email]
---
Disclaimer : http
Re: [R] Error Bar Issues
Thanks for the suggestion...but R still doesn't like it. Now I have 3 error
messages. It seems to dislike my *err=y* command. I'm going to continue
trying. Thanks for your help! If you happen to spot anything else, please
let me know!
thanks!
beloitstudent
On Sat, Jun 5, 2010 at 5:16 PM, Joris FA Meys [via R] <
ml-node+2244611-1554261936-278...@n4.nabble.com
> wrote:
> you can't refer to an argument within a function call. Try
>
> uiw <- Saline[,3]
>
> plotCI(x=Saline [,1],y=Saline [,2], uiw=uiw, liw=uiw, err=y, pch=21,
> pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
> xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
> yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
> font.lab=2, add=TRUE)
>
> Cheers
> Joris
>
> On Sat, Jun 5, 2010 at 6:09 PM, beloitstudent <[hidden
> email]>
> wrote:
>
> >
> > Hello all,
> >
> > I am an undergraduate student who is having syntax issues trying to get
> > error bars on my graph.
> >
> > This is the data, which I assigned the name "Saline" to.
> > Time Average SEM
> > 1 -20 0.00 0.000
> > 2
> > 330 0.00 0.000
> > 445 3.227902 0.7462524
> > 560 5.04 1.1623944
> > 680 6.107491 1.5027762
> > 7 110 6.968231 1.3799637
> > 8 140 7.325713 1.2282053
> > 9 200 7.875194 1.1185175
> > 10 2606.513927 0.5386359
> > 11 3204.204342 0.6855906
> >
> > This is the command that I typed in to get my error bars.
> >
> > plotCI(x=Saline [,1],y=Saline [,2], uiw=Saline [,3], liw=uiw, err=y,
> pch=21,
> > pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
> > xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
> > yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
> > font.lab=2, add=TRUE)
> >
> > And this is the error message I keep getting
> > Error in plotCI(x = Saline[, 1], y = Saline[, 2], uiw = Saline[, 3], liw
> =
> > uiw, :
> > object 'uiw' not found
> > In addition: Warning message:
> > In if (err == "y") z <- y else z <- x :
> > the condition has length > 1 and only the first element will be used
> >
> > Now, to me, the command seems correct.
> > I want the error bars to show up where the points on my graph are...so
> the x
> > coordinates should be my time (aka Saline [1]) and the y coordinates
> should
> > be my Averages (aka Saline [2]) and my upper and lower limits to my
> > confidence interval should be the SEM from Saline [3], but something is
> > wrong with this and I cannot figure out what it is. If anyone has
> > suggestions I would be very grateful. Thanks for your help!
> >
> > beloitstudent
> > --
> > View this message in context:
> http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244335.html
> > Sent from the R help mailing list archive at Nabble.com.
> >
> > __
> > [hidden email]
> > 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.
> >
>
>
>
> --
> Ghent University
> Faculty of Bioscience Engineering
> Department of Applied mathematics, biometrics and process control
>
> tel : +32 9 264 59 87
> [hidden email]
> ---
> Disclaimer : http://helpdesk.ugent.be/e-maildisclaimer.php
>
> __
> [hidden email] 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.
>
>
> --
> View message @
> http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244611.html
> To unsubscribe from Error Bar Issues, click here< (link removed) ==>.
>
>
>
--
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Re: [R] Error Bar Issues
you can't refer to an argument within a function call. Try
uiw <- Saline[,3]
plotCI(x=Saline [,1],y=Saline [,2], uiw=uiw, liw=uiw, err=y, pch=21,
pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
font.lab=2, add=TRUE)
Cheers
Joris
On Sat, Jun 5, 2010 at 6:09 PM, beloitstudent wrote:
>
> Hello all,
>
> I am an undergraduate student who is having syntax issues trying to get
> error bars on my graph.
>
> This is the data, which I assigned the name "Saline" to.
> Time Average SEM
> 1 -20 0.00 0.000
> 2
> 3 30 0.00 0.000
> 4 45 3.227902 0.7462524
> 5 60 5.04 1.1623944
> 6 80 6.107491 1.5027762
> 7 110 6.968231 1.3799637
> 8 140 7.325713 1.2282053
> 9 200 7.875194 1.1185175
> 10 260 6.513927 0.5386359
> 11 320 4.204342 0.6855906
>
> This is the command that I typed in to get my error bars.
>
> plotCI(x=Saline [,1],y=Saline [,2], uiw=Saline [,3], liw=uiw, err=y, pch=21,
> pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
> xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
> yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
> font.lab=2, add=TRUE)
>
> And this is the error message I keep getting
> Error in plotCI(x = Saline[, 1], y = Saline[, 2], uiw = Saline[, 3], liw =
> uiw, :
> object 'uiw' not found
> In addition: Warning message:
> In if (err == "y") z <- y else z <- x :
> the condition has length > 1 and only the first element will be used
>
> Now, to me, the command seems correct.
> I want the error bars to show up where the points on my graph are...so the x
> coordinates should be my time (aka Saline [1]) and the y coordinates should
> be my Averages (aka Saline [2]) and my upper and lower limits to my
> confidence interval should be the SEM from Saline [3], but something is
> wrong with this and I cannot figure out what it is. If anyone has
> suggestions I would be very grateful. Thanks for your help!
>
> beloitstudent
> --
> View this message in context:
> http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244335.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.
>
--
Ghent University
Faculty of Bioscience Engineering
Department of Applied mathematics, biometrics and process control
tel : +32 9 264 59 87
joris.m...@ugent.be
---
Disclaimer : http://helpdesk.ugent.be/e-maildisclaimer.php
__
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] Error Bar Issues
Hello all,
I am an undergraduate student who is having syntax issues trying to get
error bars on my graph.
This is the data, which I assigned the name "Saline" to.
Time Average SEM
1 -20 0.00 0.000
2
330 0.00 0.000
445 3.227902 0.7462524
560 5.04 1.1623944
680 6.107491 1.5027762
7 110 6.968231 1.3799637
8 140 7.325713 1.2282053
9 200 7.875194 1.1185175
10 2606.513927 0.5386359
11 3204.204342 0.6855906
This is the command that I typed in to get my error bars.
plotCI(x=Saline [,1],y=Saline [,2], uiw=Saline [,3], liw=uiw, err=y, pch=21,
pt.bg=par("bg"), cex=1.5, lty=1, type="o", gap=0, sfrac=0.005,
xlim=c(-21,340),xaxp=c(-20,320,11), xlab="Time (min)", ylim=c(0,12),
yaxp=c(0,12,11), ylab="Arterial Plasma Acetaminophen (µg/mL)", las=1,
font.lab=2, add=TRUE)
And this is the error message I keep getting
Error in plotCI(x = Saline[, 1], y = Saline[, 2], uiw = Saline[, 3], liw =
uiw, :
object 'uiw' not found
In addition: Warning message:
In if (err == "y") z <- y else z <- x :
the condition has length > 1 and only the first element will be used
Now, to me, the command seems correct.
I want the error bars to show up where the points on my graph are...so the x
coordinates should be my time (aka Saline [1]) and the y coordinates should
be my Averages (aka Saline [2]) and my upper and lower limits to my
confidence interval should be the SEM from Saline [3], but something is
wrong with this and I cannot figure out what it is. If anyone has
suggestions I would be very grateful. Thanks for your help!
beloitstudent
--
View this message in context:
http://r.789695.n4.nabble.com/Error-Bar-Issues-tp2244335p2244335.html
Sent from the R help mailing list archive at Nabble.com.
__
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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.
