barchart() {Lattice} help.

Hi R Users,

I'm trying to plot a stacked barplot. Here is data:

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

I'm using following R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
barchart(data.matrix(dta),
        horizontal=FALSE,
        stack=TRUE,
col=2:4,
        auto.key=list(space="right",
title=names(dimnames(dta))[2])
)

Above code is working fine, but I need help with:

1) Legend boxes have default colors, whereas I'm looking them to match with
barplot colors (col=2:4).

2) Can I increase scale for y axis, like currently it plotting -2,0,2,4,...
I would like it as -2,-1,0,1,...

Any help would be greatly appreciated,

Thanks,
Peng

	[[alternative HTML version deleted]]

Hi Peter,

I'm not sure but it seems "scales" command works only with integer values.

If the y-axis values are very small (such as -0.03, -0.02, -0.01, 0,
0.01,..., 0.08). My current plot has values 0, 0.05, and 0.10 only. But I
need it to extend it to negative numbers and reduce the scale width (like
-0.04, -0.02, 0, 0.02,...).

Can I change these too? Thanks!

Peng

On Thu, Nov 26, 2009 at 3:18 PM, Peter Ehlers <ehlers at ucalgary.ca> wrote:

Peng Cai wrote:

Hi R Users,

I'm trying to plot a stacked barplot. Here is data:

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

I'm using following R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
barchart(data.matrix(dta),
       horizontal=FALSE,
       stack=TRUE,
col=2:4,
       auto.key=list(space="right",
title=names(dimnames(dta))[2])
)

Above code is working fine, but I need help with:

1) Legend boxes have default colors, whereas I'm looking them to match
with
barplot colors (col=2:4).

replace the line

 col = 2:4,

with

 par.settings = simpleTheme(col = 2:4),


 2) Can I increase scale for y axis, like currently it plotting

-2,0,2,4,...
I would like it as -2,-1,0,1,...

add the line

 scales = list(y = list(at = -2:8)),

or whatever tick locations you prefer.

 -Peter Ehlers

Any help would be greatly appreciated,

Thanks,
Peng

       [[alternative HTML version deleted]]

Thanks a lot Peter! One more help, is there a similar function  
abline() for
barchart().

I'm trying to add a (light gray colored) horizontal lines, one for  
each
y-value.

Peng

On Thu, Nov 26, 2009 at 5:59 PM, Peter Ehlers <ehlers at ucalgary.ca>  
wrote:

Peng Cai wrote:

Hi Peter,

I'm not sure but it seems "scales" command works only with integer  
values.

If the y-axis values are very small (such as -0.03, -0.02, -0.01, 0,
0.01,..., 0.08). My current plot has values 0, 0.05, and 0.10  
only. But I
need it to extend it to negative numbers and reduce the scale  
width (like
-0.04, -0.02, 0, 0.02,...).

Can I change these too? Thanks!

Use, e.g.

myYscale <- seq(-0.04, 0.08, 0.02)
barchart(...,
 ...,
 scales = list(y = list(at = myYscale)),
 ...
)

-Peter Ehlers

Peng

On Thu, Nov 26, 2009 at 3:18 PM, Peter Ehlers <ehlers at ucalgary.ca>  
wrote:

Peng Cai wrote:

Hi R Users,

I'm trying to plot a stacked barplot. Here is data:

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

I'm using following R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
barchart(data.matrix(dta),
     horizontal=FALSE,
     stack=TRUE,
col=2:4,
     auto.key=list(space="right",
title=names(dimnames(dta))[2])
)

Above code is working fine, but I need help with:

1) Legend boxes have default colors, whereas I'm looking them to  
match
with
barplot colors (col=2:4).

replace the line

col = 2:4,

with

par.settings = simpleTheme(col = 2:4),


2) Can I increase scale for y axis, like currently it plotting

-2,0,2,4,...
I would like it as -2,-1,0,1,...

add the line

scales = list(y = list(at = -2:8)),

or whatever tick locations you prefer.

-Peter Ehlers


Any help would be greatly appreciated,

Thanks,
Peng

     [[alternative HTML version deleted]]

	[[alternative HTML version deleted]]

Thanks David, I tried panel.abline(h=somevalue) -- both inside and outside
of barchart() function but its not working. Any suggestions?

Peng

On Thu, Nov 26, 2009 at 6:42 PM, David Winsemius <dwinsemius at comcast.net>wrote:

On Nov 26, 2009, at 6:12 PM, Peng Cai wrote:

 Thanks a lot Peter! One more help, is there a similar function abline()

for
barchart().

?panel.abline

I'm trying to add a (light gray colored) horizontal lines, one for each
y-value.

Peng

On Thu, Nov 26, 2009 at 5:59 PM, Peter Ehlers <ehlers at ucalgary.ca> wrote:

 Peng Cai wrote:

 Hi Peter,

I'm not sure but it seems "scales" command works only with integer
values.

If the y-axis values are very small (such as -0.03, -0.02, -0.01, 0,
0.01,..., 0.08). My current plot has values 0, 0.05, and 0.10 only. But
I
need it to extend it to negative numbers and reduce the scale width
(like
-0.04, -0.02, 0, 0.02,...).

Can I change these too? Thanks!

Use, e.g.

myYscale <- seq(-0.04, 0.08, 0.02)
barchart(...,
 ...,
 scales = list(y = list(at = myYscale)),
 ...
)

-Peter Ehlers



 Peng

On Thu, Nov 26, 2009 at 3:18 PM, Peter Ehlers <ehlers at ucalgary.ca>
wrote:


 Peng Cai wrote:

Hi R Users,

I'm trying to plot a stacked barplot. Here is data:

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

I'm using following R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
barchart(data.matrix(dta),
    horizontal=FALSE,
    stack=TRUE,
col=2:4,
    auto.key=list(space="right",
title=names(dimnames(dta))[2])
)

Above code is working fine, but I need help with:

1) Legend boxes have default colors, whereas I'm looking them to match
with
barplot colors (col=2:4).

replace the line

col = 2:4,

with

par.settings = simpleTheme(col = 2:4),


2) Can I increase scale for y axis, like currently it plotting

 -2,0,2,4,...

I would like it as -2,-1,0,1,...

add the line

scales = list(y = list(at = -2:8)),

or whatever tick locations you prefer.

-Peter Ehlers


Any help would be greatly appreciated,

Thanks,
Peng

    [[alternative HTML version deleted]]

R-help at r-project.org mailing list

       [[alternative HTML version deleted]]

David Winsemius, MD
Heritage Laboratories
West Hartford, CT

Currently I'm trying and I'm looking to draw lines y=-3, y=-2,..., y=8:

Data:
Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

Code:
library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
coltemp=c(619,376,497,598,124,92,402)
myYscale <- seq(-10, 10, 1)
barchart(data.matrix(dta),
       horizontal=FALSE,
       stack=TRUE,
     par.settings = simpleTheme(col = colors()[coltemp]),
       auto.key=list(space="right",
     title=names(dimnames(dta))[2]),
     border=NA,
     main="NextGen - 2025 Monthly Average PM2.5 Contribution at ATL",
     ylab="Speciated PM2.5 Contribution (?g/m3)",
     xlab="Month",
     box.ratio=2.5,
     scales = list(y = list(at = myYscale)),
)

Thanks,
Peng

On Thu, Nov 26, 2009 at 7:23 PM, Peng Cai <pengcaimaillist at gmail.com> wrote:

Hi Again,

Before I start getting into what you just suggested, let me confirm if I
made my point clear previously. I'm looking for horizontal lines similar to
one on the following link (It has parallel lines for each y=200, y=400,...):

http://pfiles.5min.com/images/176735/176734313.jpg

What you just suggested can solve this purpose? Thanks,

Peng


On Thu, Nov 26, 2009 at 7:09 PM, Peter Ehlers <ehlers at ucalgary.ca> wrote:

Peng Cai wrote:

Thanks David, I tried panel.abline(h=somevalue) -- both inside and
outside
of barchart() function but its not working. Any suggestions?

Peng

Here's some code related to the data you posted earlier.


barchart(data.matrix(dta), horizontal = FALSE, stack = TRUE,
            par.settings = simpleTheme(col = 2:4),
            panel=function(x,y,...){
              panel.abline(h=c(-2,0,3,4), col.line="gray")
              panel.barchart(x,y,...)

            },
            scales = list(y = list(at = -2:8)),
            auto.key = list(space = 'right', rectangles=TRUE,
                points=FALSE)
)

If you want the gray lines in front of the bars, switch the
order of the panel functions. With lattice, it's all about
what goes into each panel (you have only one panel here).
If you want more than one thing in a panel, you have to set
up a function to do those things.

I had to add the rectangles= and points= arguments to
auto.key to get the same key as you had earlier.

 -Peter Ehlers

On Thu, Nov 26, 2009 at 6:42 PM, David Winsemius <dwinsemius at comcast.net

wrote:

 On Nov 26, 2009, at 6:12 PM, Peng Cai wrote:

 Thanks a lot Peter! One more help, is there a similar function abline()

for
barchart().

 ?panel.abline

 I'm trying to add a (light gray colored) horizontal lines, one for each

y-value.

Peng

On Thu, Nov 26, 2009 at 5:59 PM, Peter Ehlers <ehlers at ucalgary.ca>
wrote:

 Peng Cai wrote:

 Hi Peter,

I'm not sure but it seems "scales" command works only with integer
values.

If the y-axis values are very small (such as -0.03, -0.02, -0.01, 0,
0.01,..., 0.08). My current plot has values 0, 0.05, and 0.10 only.
But
I
need it to extend it to negative numbers and reduce the scale width
(like
-0.04, -0.02, 0, 0.02,...).

Can I change these too? Thanks!


 Use, e.g.

myYscale <- seq(-0.04, 0.08, 0.02)
barchart(...,
 ...,
 scales = list(y = list(at = myYscale)),
 ...
)

-Peter Ehlers



 Peng

On Thu, Nov 26, 2009 at 3:18 PM, Peter Ehlers <ehlers at ucalgary.ca>
wrote:


 Peng Cai wrote:

Hi R Users,

 I'm trying to plot a stacked barplot. Here is data:

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

I'm using following R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
barchart(data.matrix(dta),
   horizontal=FALSE,
   stack=TRUE,
col=2:4,
   auto.key=list(space="right",
title=names(dimnames(dta))[2])
)

Above code is working fine, but I need help with:

1) Legend boxes have default colors, whereas I'm looking them to
match
with
barplot colors (col=2:4).

replace the line

 col = 2:4,

with

par.settings = simpleTheme(col = 2:4),


2) Can I increase scale for y axis, like currently it plotting

 -2,0,2,4,...

I would like it as -2,-1,0,1,...

add the line

 scales = list(y = list(at = -2:8)),

or whatever tick locations you prefer.

-Peter Ehlers


Any help would be greatly appreciated,

 Thanks,

Peng

   [[alternative HTML version deleted]]

R-help at r-project.org mailing list

Heritage Laboratories
West Hartford, CT

Hello Peter and David,

Thanks for your help. I have added what you suggested and its working
perfectly fine except:

When I add the panel function, the legend changes. In the sense without the
panel function the column names are shown with small colored rectangles (on
right), but after adding it the rectangles change to tiny un-filled
diamonds. Any suggestions?

My current code and data is below,

Thanks a lot,
Peng


Data:
  

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

Code:

    

dta<-read.table("data.txt", header=TRUE, row.names="Sample")
coltemp=c(619,376,497)
myYscale <- seq(-10, 10, 1)
barchart(data.matrix(dta),
       horizontal=FALSE,
       stack=TRUE,
     par.settings = simpleTheme(col = colors()[coltemp]),
       auto.key=list(space="right"),
     border=NA,
     panel=function(x,y,...){
              panel.abline(h=c(myYscale), col.line="gray")
              panel.barchart(x,y,...)
       },
     scales = list(y = list(at = myYscale))
)

    

Thanks,
  

Peng


On Thu, Nov 26, 2009 at 7:23 PM, Peng Cai <pengcaimaillist at gmail.com>wrote:

    

Hi Again,

Before I start getting into what you just suggested, let me confirm if I
made my point clear previously. I'm looking for horizontal lines similar to
one on the following link (It has parallel lines for each y=200, y=400,...):

http://pfiles.5min.com/images/176735/176734313.jpg

What you just suggested can solve this purpose? Thanks,

Peng


On Thu, Nov 26, 2009 at 7:09 PM, Peter Ehlers <ehlers at ucalgary.ca> wrote:

      

Peng Cai wrote:

        

Thanks David, I tried panel.abline(h=somevalue) -- both inside and
outside
of barchart() function but its not working. Any suggestions?

Peng

          

Here's some code related to the data you posted earlier.


barchart(data.matrix(dta), horizontal = FALSE, stack = TRUE,
            par.settings = simpleTheme(col = 2:4),
            panel=function(x,y,...){
              panel.abline(h=c(-2,0,3,4), col.line="gray")
              panel.barchart(x,y,...)

            },
            scales = list(y = list(at = -2:8)),
            auto.key = list(space = 'right', rectangles=TRUE,
                points=FALSE)
)

If you want the gray lines in front of the bars, switch the
order of the panel functions. With lattice, it's all about
what goes into each panel (you have only one panel here).
If you want more than one thing in a panel, you have to set
up a function to do those things.

I had to add the rectangles= and points= arguments to
auto.key to get the same key as you had earlier.

 -Peter Ehlers



        

On Thu, Nov 26, 2009 at 6:42 PM, David Winsemius <
dwinsemius at comcast.net>wrote:

 On Nov 26, 2009, at 6:12 PM, Peng Cai wrote:
          

 Thanks a lot Peter! One more help, is there a similar function
abline()

            

for
barchart().

 ?panel.abline
              

 I'm trying to add a (light gray colored) horizontal lines, one for
            

each
y-value.

Peng

On Thu, Nov 26, 2009 at 5:59 PM, Peter Ehlers <ehlers at ucalgary.ca>
wrote:

 Peng Cai wrote:

              

 Hi Peter,

                

I'm not sure but it seems "scales" command works only with integer
values.

If the y-axis values are very small (such as -0.03, -0.02, -0.01, 0,
0.01,..., 0.08). My current plot has values 0, 0.05, and 0.10 only.
But
I
need it to extend it to negative numbers and reduce the scale width
(like
-0.04, -0.02, 0, 0.02,...).

Can I change these too? Thanks!


 Use, e.g.
                  

myYscale <- seq(-0.04, 0.08, 0.02)
barchart(...,
 ...,
 scales = list(y = list(at = myYscale)),
 ...
)

-Peter Ehlers



 Peng

                

On Thu, Nov 26, 2009 at 3:18 PM, Peter Ehlers <ehlers at ucalgary.ca>
wrote:


 Peng Cai wrote:

                  

Hi R Users,

 I'm trying to plot a stacked barplot. Here is data:
                    

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

I'm using following R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
barchart(data.matrix(dta),
   horizontal=FALSE,
   stack=TRUE,
col=2:4,
   auto.key=list(space="right",
title=names(dimnames(dta))[2])
)

Above code is working fine, but I need help with:

1) Legend boxes have default colors, whereas I'm looking them to
match
with
barplot colors (col=2:4).

replace the line

 col = 2:4,
                      

with

par.settings = simpleTheme(col = 2:4),


2) Can I increase scale for y axis, like currently it plotting

 -2,0,2,4,...

                    

I would like it as -2,-1,0,1,...

add the line

 scales = list(y = list(at = -2:8)),
                      

or whatever tick locations you prefer.

-Peter Ehlers


Any help would be greatly appreciated,

 Thanks,
                    

Peng

   [[alternative HTML version deleted]]

R-help at r-project.org mailing list

Heritage Laboratories
West Hartford, CT



            

@ Peter: I got it, thanks a lot for all your help! And yes, as you said the
"title" option in auto.key is redundant.


@ All, Hi: I need to add percentage sign to y-axis labels (like 0%, 20%,
..., 100%). How can I get it. I'm using barchart() function as given below
along with the data set.

Data:
Sample ? ?Col1 ? ?Col2 ? ?Col3
Row1 ? ?-20 ? ?40 ? ?-10
Row2 ? ?30 ? ?-20 ? ?40
Row3 ? ?30 ? ?10 ? ?-20
Row4 ? ?20 ? ?20 ? ?-10

R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
myYscale <- seq(-140,140,20)
barchart(data.matrix(dta),
? ?horizontal=FALSE,
? ? ?stack=TRUE,
? ?par.settings = simpleTheme(col = c(2:4)),
? ?auto.key=list(space = 'right', rows = 3, rectangles = TRUE,
? ? ? ? ? ? ? ? ?points = FALSE ),
? ?scales = list(y = list(at = myYscale)),
? ?panel=function(x,y,...){
? ? ? ?panel.abline(h=c(myYscale), col.line="gray")
? ? ? ? ?panel.barchart(x,y,...)}
)

Any help would be greatly appreciated,
Peng

On Thu, Nov 26, 2009 at 10:38 PM, P Ehlers <ehlers at ucalgary.ca> wrote:

As I wrote earlier:


"I had to add the rectangles= and points= arguments to

auto.key to get the same key as you had earlier."

and the relevant line in the code was:


?auto.key = list(space = 'right', rectangles=TRUE, points=FALSE)

-Peter Ehlers

Peng Cai wrote:

Hello Peter and David,

Thanks for your help. I have added what you suggested and its working
perfectly fine except:

When I add the panel function, the legend changes. In the sense without
the
panel function the column names are shown with small colored rectangles
(on
right), but after adding it the rectangles change to tiny un-filled
diamonds. Any suggestions?

My current code and data is below,

Thanks a lot,
Peng


Data:

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

Code:

dta<-read.table("data.txt", header=TRUE, row.names="Sample")
coltemp=c(619,376,497)
myYscale <- seq(-10, 10, 1)
barchart(data.matrix(dta),
? ? ? horizontal=FALSE,
? ? ? stack=TRUE,
? ? par.settings = simpleTheme(col = colors()[coltemp]),
? ? ? auto.key=list(space="right"),
? ? border=NA,
? ? panel=function(x,y,...){
? ? ? ? ? ? ?panel.abline(h=c(myYscale), col.line="gray")
? ? ? ? ? ? ?panel.barchart(x,y,...)
? ? ? },
? ? scales = list(y = list(at = myYscale))
)

Thanks,

Peng


On Thu, Nov 26, 2009 at 7:23 PM, Peng Cai <pengcaimaillist at gmail.com

wrote:

Hi Again,

Before I start getting into what you just suggested, let me confirm if I
made my point clear previously. I'm looking for horizontal lines similar
to
one on the following link (It has parallel lines for each y=200,
y=400,...):

http://pfiles.5min.com/images/176735/176734313.jpg

What you just suggested can solve this purpose? Thanks,

Peng


On Thu, Nov 26, 2009 at 7:09 PM, Peter Ehlers <ehlers at ucalgary.ca>
wrote:

Peng Cai wrote:

Thanks David, I tried panel.abline(h=somevalue) -- both inside and
outside
of barchart() function but its not working. Any suggestions?

Peng

Here's some code related to the data you posted earlier.


barchart(data.matrix(dta), horizontal = FALSE, stack = TRUE,
? ? ? ? ? ?par.settings = simpleTheme(col = 2:4),
? ? ? ? ? ?panel=function(x,y,...){
? ? ? ? ? ? ?panel.abline(h=c(-2,0,3,4), col.line="gray")
? ? ? ? ? ? ?panel.barchart(x,y,...)

? ? ? ? ? ?},
? ? ? ? ? ?scales = list(y = list(at = -2:8)),
? ? ? ? ? ?auto.key = list(space = 'right', rectangles=TRUE,
? ? ? ? ? ? ? ?points=FALSE)
)

If you want the gray lines in front of the bars, switch the
order of the panel functions. With lattice, it's all about
what goes into each panel (you have only one panel here).
If you want more than one thing in a panel, you have to set
up a function to do those things.

I had to add the rectangles= and points= arguments to
auto.key to get the same key as you had earlier.

?-Peter Ehlers

On Thu, Nov 26, 2009 at 6:42 PM, David Winsemius <
dwinsemius at comcast.net>wrote:

?On Nov 26, 2009, at 6:12 PM, Peng Cai wrote:

?Thanks a lot Peter! One more help, is there a similar function
abline()

for
barchart().

??panel.abline

?I'm trying to add a (light gray colored) horizontal lines, one for

each
y-value.

Peng

On Thu, Nov 26, 2009 at 5:59 PM, Peter Ehlers <ehlers at ucalgary.ca>
wrote:

?Peng Cai wrote:

?Hi Peter,

I'm not sure but it seems "scales" command works only with integer
values.

If the y-axis values are very small (such as -0.03, -0.02, -0.01,
0,
0.01,..., 0.08). My current plot has values 0, 0.05, and 0.10
only.
But
I
need it to extend it to negative numbers and reduce the scale
width
(like
-0.04, -0.02, 0, 0.02,...).

Can I change these too? Thanks!


?Use, e.g.

myYscale <- seq(-0.04, 0.08, 0.02)
barchart(...,
?...,
?scales = list(y = list(at = myYscale)),
?...
)

-Peter Ehlers



?Peng

On Thu, Nov 26, 2009 at 3:18 PM, Peter Ehlers <ehlers at ucalgary.ca

wrote:


?Peng Cai wrote:

Hi R Users,

?I'm trying to plot a stacked barplot. Here is data:

Sample Col1 Col2 Col3
Row1 -2 4 -1
Row2 3 -2 4
Row3 3 5 -2
Row4 4 1 -1

I'm using following R code:

library(lattice)
dta<-read.table("data.txt", header=TRUE, row.names="Sample")
barchart(data.matrix(dta),
? horizontal=FALSE,
? stack=TRUE,
col=2:4,
? auto.key=list(space="right",
title=names(dimnames(dta))[2])
)

Above code is working fine, but I need help with:

1) Legend boxes have default colors, whereas I'm looking them to
match
with
barplot colors (col=2:4).

replace the line

?col = 2:4,

with

par.settings = simpleTheme(col = 2:4),


2) Can I increase scale for y axis, like currently it plotting

?-2,0,2,4,...

I would like it as -2,-1,0,1,...

add the line

?scales = list(y = list(at = -2:8)),

or whatever tick locations you prefer.

-Peter Ehlers


Any help would be greatly appreciated,

?Thanks,

Peng

? [[alternative HTML version deleted]]

R-help at r-project.org mailing list

Heritage Laboratories
West Hartford, CT

? ? ? ?[[alternative HTML version deleted]]