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philipharrison

2011-Jun-24 16:52 UTC

[R] ggplot2 month and year boxplot x axis order problem

Hi

I am very new to R, I am attempting to produce a monthly boxplot with the
following fish thermal telemetry data:

    ID   Temp        Date.Time Month.Year Month Week  Shortdate   
1 1734 4.4140 04/05/2010 11:56    05,2010   May   19 04/05/2010 
2 1734 4.1002 04/05/2010 12:06    05,2010   May   19 04/05/2010 
3 1734 3.9433 04/05/2010 12:09    05,2010   May   19 04/05/2010 
4 1734 3.6295 04/05/2010 12:29    05,2010   May   19 04/05/2010 
5 1734 3.6295 04/05/2010 12:34    05,2010   May   19 04/05/2010 
6 1734 3.6295 04/05/2010 12:37    05,2010   May   19 04/05/2010

I constructed my data in access. I have data from May2010 to april 2011

When I use ggplot2 

plot6<-ggplot(data=Good,aes(Month.Year,Temp))> + geom_boxplot() 
the x axis factor order is jan 2011,feb2011, march 2011, april2011, May
2010etc. I would like the months to be in chronological order

I have tried a number of conversions using format and as.date and as.POSIXlt
with no luck including

Goodyearmonth<-as.Date(Good$Shortdate,format="%Y/%m")

and i tried

Good$Gmonth<- with(Good,factor(as.POSIXlt(Shortdate)$mon)

If I pivot my data by month in access so it looks like this
May-10	Jun-10	Jul-10
4.1002	7.3951	8.3365
3.9433	7.3951	8.1796
3.6295	7.3951	8.0227

then a simple boxplot() works however I would like to use the ggplot2
package because eventually I would like to change the whiskers to 95% and 5%
quantiles (I think I know how to do this
http://r.789695.n4.nabble.com/Custom-Plot-means-SD-amp-5th-95th-Plotmeans-or-Boxplot-td848126.html)

Thanks for any help you can provide

Philip Harrison
PhD Student Fisheries ecology 
Uwaterloo

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stephen sefick

2011-Jun-24 17:57 UTC

head link

[R] ggplot2 month and year boxplot x axis order problem

This needs to be made reproducible.  In other words it would be
helpful if you would use dput to share the data.

dput(Good)

copy the output to the email in this format

x  <- ()

with the output from dput inside the ()

then write the code for ggplot under this line so that we can then
just modify things to make it work.

On Fri, Jun 24, 2011 at 11:52 AM, philipharrison <pharriso at
uwaterloo.ca> wrote:> Hi
>
> I am very new to R, I am attempting to produce a monthly boxplot with the
> following fish thermal telemetry data:
>
> ? ?ID ? Temp ? ? ? ?Date.Time Month.Year Month Week ?Shortdate
> 1 1734 4.4140 04/05/2010 11:56 ? ?05,2010 ? May ? 19 04/05/2010
> 2 1734 4.1002 04/05/2010 12:06 ? ?05,2010 ? May ? 19 04/05/2010
> 3 1734 3.9433 04/05/2010 12:09 ? ?05,2010 ? May ? 19 04/05/2010
> 4 1734 3.6295 04/05/2010 12:29 ? ?05,2010 ? May ? 19 04/05/2010
> 5 1734 3.6295 04/05/2010 12:34 ? ?05,2010 ? May ? 19 04/05/2010
> 6 1734 3.6295 04/05/2010 12:37 ? ?05,2010 ? May ? 19 04/05/2010
>
> I constructed my data in access. I have data from May2010 to april 2011
>
> When I use ggplot2
>
> plot6<-ggplot(data=Good,aes(Month.Year,Temp))
>> + geom_boxplot()
>
> the x axis factor order is jan 2011,feb2011, march 2011, april2011, May
> 2010etc. I would like the months to be in chronological order
>
> I have tried a number of conversions using format and as.date and
as.POSIXlt
> with no luck including
>
> Goodyearmonth<-as.Date(Good$Shortdate,format="%Y/%m")
>
> and i tried
>
> Good$Gmonth<- with(Good,factor(as.POSIXlt(Shortdate)$mon)
>
> If I pivot my data by month in access so it looks like this
> May-10 ?Jun-10 ?Jul-10
> 4.1002 ?7.3951 ?8.3365
> 3.9433 ?7.3951 ?8.1796
> 3.6295 ?7.3951 ?8.0227
>
> then a simple boxplot() works however I would like to use the ggplot2
> package because eventually I would like to change the whiskers to 95% and
5%
> quantiles (I think I know how to do this
>
http://r.789695.n4.nabble.com/Custom-Plot-means-SD-amp-5th-95th-Plotmeans-or-Boxplot-td848126.html)
>
> Thanks for any help you can provide
>
> Philip Harrison
> PhD Student Fisheries ecology
> Uwaterloo
>
> --
> View this message in context:
http://r.789695.n4.nabble.com/ggplot2-month-and-year-boxplot-x-axis-order-problem-tp3623029p3623029.html
> Sent from the R help mailing list archive at Nabble.com.
>
> ______________________________________________
> R-help at 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.
>


-- 
Stephen Sefick
____________________________________
| Auburn University? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ?? ? ? ? |
| Biological Sciences ? ? ? ? ? ? ? ? ? ? ?? ? ? ? ?? ? ? ?|
| 331 Funchess Hall? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ?|
| Auburn, Alabama? ? ? ? ? ? ? ? ? ? ? ? ? ?? ? ? ? ? ??? |
| 36849? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ?? ? ? ? |
|___________________________________|
| sas0025 at auburn.edu? ? ? ? ? ? ? ? ? ? ? ? ? ?? ? ? ?|
| http://www.auburn.edu/~sas0025? ? ? ? ? ?? ? ? |
|___________________________________|

Let's not spend our time and resources thinking about things that are
so little or so large that all they really do for us is puff us up and
make us feel like gods.? We are mammals, and have not exhausted the
annoying little problems of being mammals.

? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? -K. Mullis

"A big computer, a complex algorithm and a long time does not equal
science."

? ? ? ? ? ? ? ? ? ? ? ? ? ? ? -Robert Gentleman

philipharrison

2011-Jun-24 18:15 UTC

head link

[R] ggplot2 month and year boxplot x axis order problem

Hi,

Thanks for your speedy reply! The file is pretty big (I have 18,000
datapoints), there is not enough room on the r screen for the entire output 
so I have just cut out a few lines from the end of the dput . I dont know if
that helps?

X <-(12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 
    12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 
    12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 
    12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 
    12L, 12L, 12L, 12L, 12L), .Label = c("01,2011",
"02,2011",
    "03,2011", "04,2011", "05,2010",
"06,2010", "07,2010", "08,2010",
    "09,2010", "10,2010", "11,2010",
"12,2010"), class = "factor")), .Names
= c("ID", 
"Temp", "Date.Time", "Month.Year",
"Month", "Week", "Shortdate",
"MY"), row.names = c(NA, -18631L), class = "data.frame"))

my ggplot  code I have tried is 

Plot1<-ggplot(data=Great,aes(Great$Month.Year,Great$Temp))+
geom_boxplot()

I dont know if that makes it any clearer

Phil


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philipharrison

2011-Jun-24 19:07 UTC

head link

[R] ggplot2 month and year boxplot x axis order problem

Hi thanks for your patience, I understand what you mean now. I made some
dummy data;

x<-(structure(list(ID = c(1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L, 1734L,
1734L, 1734L, 1734L, 1734L), Temp = c(4.414, 4.1002, 3.9433,
4.414, 4.414, 4.414, 4.414, 4.414, 4.414, 4.414, 4.414, 4.414,
4.414, 4.414, 4.414, 4.414, 4.414, 4.414, 4.414, 4.414, 4.414,
4.414, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433,
3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433,
3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433, 3.9433,
11.6314, 11.6314, 11.6314, 11.6314, 11.6314, 11.6314, 11.6314,
11.6314, 11.6314, 11.4745, 11.4745, 11.4745, 11.4745, 11.6314,
11.6314, 11.7883, 12.1021, 12.5728, 13.3573, 13.5142, 14.1418,
15.0832, 11.1607, 11.1607, 11.1607, 11.1607, 11.3176, 11.3176,
11.3176, 11.9452, 11.7883, 11.7883, 11.7883, 11.9452, 12.4159,
12.5728, 13.3573, 13.3573, 13.3573, 13.0435, 12.8866, 12.8866,
12.8866, 12.8866, 12.8866, 12.8866, 12.8866, 12.8866, 12.8866,
12.8866, 12.8866, 12.8866, 12.8866, 12.8866, 12.8866, 12.8866,
11.0038, 11.0038, 11.0038, 11.0038, 11.0038, 11.0038, 11.0038,
11.0038, 10.8469, 10.8469, 10.8469, 10.8469, 10.8469, 10.8469,
10.8469, 10.8469, 9.121, 9.121, 9.121, 9.121, 9.121, 9.121, 9.121,
9.121, 5.0416, 5.0416, 5.0416, 5.0416, 5.0416, 5.0416, 5.0416,
5.0416, 5.0416, 5.0416, 3.3157, 3.3157, 3.3157, 3.3157, 3.1588,
3.1588, 3.1588, 3.1588, 1.5898, 1.7467, 1.7467, 1.7467, 1.7467,
1.7467, 0.8053, 0.8053, 0.8053, 0.8053, 0.8053, 0.8053, 0.8053,
0.8053, 0.8053, 0.8053, 2.845, 2.845, 2.845, 2.845, 2.845, 2.845,
2.845, 2.845, 2.845, 2.845, 2.845, 2.845, 2.845), Date.Time structure(c(2L,
2L, 2L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L,
3L, 3L, 3L, 3L, 3L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L,
8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 9L, 9L, 9L, 9L,
9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L,
9L, 9L, 11L, 11L, 11L, 11L, 11L, 11L, 11L, 13L, 13L, 13L, 13L,
13L, 13L, 13L, 13L, 13L, 13L, 14L, 14L, 14L, 14L, 14L, 14L, 14L,
14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L, 12L, 12L, 12L,
12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L,
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 4L, 4L, 4L, 4L, 4L, 4L, 4L, 4L,
4L, 4L, 5L, 5L, 5L, 5L, 5L, 5L, 5L, 5L, 7L, 7L, 7L, 7L, 7L, 7L,
6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 10L, 10L, 10L, 10L, 10L,
10L, 10L, 10L, 10L, 10L, 10L, 10L, 10L), .Label = c("02/11/2010",
"04/05/2010", "07/06/2010", "08/12/2010",
"10/01/2011", "13/03/2011",
"15/02/2011", "15/07/2010", "19/08/2010",
"20/04/2011", "20/08/2010",
"23/10/2010", "28/09/2010", "30/09/2010"), class =
"factor"),
    Month.Year = structure(c(5L, 5L, 5L, 6L, 6L, 6L, 6L, 6L,
    6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 7L,
    7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L,
    7L, 7L, 7L, 7L, 7L, 7L, 7L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L,
    8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L,
    8L, 8L, 8L, 8L, 8L, 8L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L,
    9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L,
    9L, 9L, 9L, 10L, 10L, 10L, 10L, 10L, 10L, 10L, 10L, 10L,
    10L, 10L, 10L, 10L, 10L, 10L, 10L, 11L, 11L, 11L, 11L, 11L,
    11L, 11L, 11L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L,
    12L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 2L, 2L, 2L, 2L, 2L,
    2L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 4L, 4L, 4L, 4L,
    4L, 4L, 4L, 4L, 4L, 4L, 4L, 4L, 4L), .Label = c("01,2011",
    "02,2011", "03,2011", "04,2011",
"05,2010", "06,2010", "07,2010",
    "08,2010", "09,2010", "10,2010",
"11,2010", "12,2010"), class "factor"),
    Month = structure(c(9L, 9L, 9L, 7L, 7L, 7L, 7L, 7L, 7L, 7L,
    7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, 6L, 6L, 6L,
    6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L, 6L,
    6L, 6L, 6L, 6L, 6L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
    2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
    2L, 2L, 2L, 2L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L,
    12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L,
    12L, 12L, 12L, 12L, 12L, 12L, 11L, 11L, 11L, 11L, 11L, 11L,
    11L, 11L, 11L, 11L, 11L, 11L, 11L, 11L, 11L, 11L, 10L, 10L,
    10L, 10L, 10L, 10L, 10L, 10L, 3L, 3L, 3L, 3L, 3L, 3L, 3L,
    3L, 3L, 3L, 5L, 5L, 5L, 5L, 5L, 5L, 5L, 5L, 4L, 4L, 4L, 4L,
    4L, 4L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 1L, 1L, 1L,
    1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L), .Label = c("Apr",
    "Aug", "Dec", "Feb", "Jan",
"Jul", "Jun", "Mar", "May",
"Nov",
    "Oct", "Sep"), class = "factor"), Week =
c(19L, 19L, 19L,
    24L, 24L, 24L, 24L, 24L, 24L, 24L, 24L, 24L, 24L, 24L, 24L,
    24L, 24L, 24L, 24L, 24L, 24L, 24L, 29L, 29L, 29L, 29L, 29L,
    29L, 29L, 29L, 29L, 29L, 29L, 29L, 29L, 29L, 29L, 29L, 29L,
    29L, 29L, 29L, 29L, 29L, 29L, 34L, 34L, 34L, 34L, 34L, 34L,
    34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L,
    34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 34L, 40L,
    40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L,
    40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L, 40L,
    40L, 40L, 43L, 43L, 43L, 43L, 43L, 43L, 43L, 43L, 43L, 43L,
    43L, 43L, 43L, 43L, 43L, 43L, 45L, 45L, 45L, 45L, 45L, 45L,
    45L, 45L, 50L, 50L, 50L, 50L, 50L, 50L, 50L, 50L, 50L, 50L,
    3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 8L, 8L, 8L, 8L, 8L, 8L, 12L,
    12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 17L, 17L, 17L,
    17L, 17L, 17L, 17L, 17L, 17L, 17L, 17L, 17L, 17L), Shortdate structure(c(2L,
    2L, 2L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L,
    3L, 3L, 3L, 3L, 3L, 3L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L,
    8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 8L, 9L,
    9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 9L,
    9L, 9L, 9L, 9L, 9L, 9L, 11L, 11L, 11L, 11L, 11L, 11L, 11L,
    13L, 13L, 13L, 13L, 13L, 13L, 13L, 13L, 13L, 13L, 14L, 14L,
    14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L, 14L,
    14L, 14L, 14L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L, 12L,
    12L, 12L, 12L, 12L, 12L, 12L, 12L, 1L, 1L, 1L, 1L, 1L, 1L,
    1L, 1L, 4L, 4L, 4L, 4L, 4L, 4L, 4L, 4L, 4L, 4L, 5L, 5L, 5L,
    5L, 5L, 5L, 5L, 5L, 7L, 7L, 7L, 7L, 7L, 7L, 6L, 6L, 6L, 6L,
    6L, 6L, 6L, 6L, 6L, 6L, 10L, 10L, 10L, 10L, 10L, 10L, 10L,
    10L, 10L, 10L, 10L, 10L, 10L), .Label = c("02/11/2010",
"04/05/2010",
    "07/06/2010", "08/12/2010", "10/01/2011",
"13/03/2011", "15/02/2011",
    "15/07/2010", "19/08/2010", "20/04/2011",
"20/08/2010", "23/10/2010",
    "28/09/2010", "30/09/2010"), class =
"factor")), .Names = c("ID",
"Temp", "Date.Time", "Month.Year",
"Month", "Week", "Shortdate"
), class = "data.frame", row.names = c(NA, -172L))

Then my ggplot is:
plot1<-ggplot(data=x,aes(Month.Year,Temp))+
+ geom_boxplot()
and my months are do not appear in chronological order in my plot

Cheers

Phil

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philipharrison

2011-Jun-25 15:11 UTC

head link

[R] ggplot2 month and year boxplot x axis order problem

Hi,

Thanks, although I dont think it was the Date.Time variable that was the
problem because my x variable was Month.Year. 

I realise now that this month variable was a factor and I changed the order
of the factor using the following :

fish$MonthYr<-factor(fish$MOYR,levels=c("05,2010","06,2010","07,2010","08,2010","09,2010","10,2010","11,2010","12,2010","01,2011","02,2011","03,2011","04,2011"))

This seems to have ordered my x axis (factors)in the correct fashion.

Thanks again for your help

Phil

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