Hello!
I have some data stored into 2 separate csv file. 1 file (called A.csv) (12
results named Group1, Group2, Group3, etc...) odds ratios, 2 file (called B.csv)
12 corresponded errors.
How to import that data into R and make forest plot like I saw inside help file
Rmeta and meta with included different font colors and names trough X and Y
axis.
I know for meta libb
...
out <- metagen(name1,name2)
plot(out,xlab="abcd")
....
But I need for my data to look like this? (copy from help file rmeta)
library(rmeta)
op <- par(lend="square", no.readonly=TRUE)
data(catheter)
a <- meta.MH(n.trt, n.ctrl, col.trt, col.ctrl, data=catheter,
names=Name, subset=c(13,6,5,3,7,12,4,11,1,8,10,2))
# angry fruit salad
metaplot(a$logOR, a$selogOR, nn=a$selogOR^-2, a$names,
summn=a$logMH, sumse=a$selogMH, sumnn=a$selogMH^-2,
logeffect=TRUE, colors=meta.colors(box="magenta",
lines="blue", zero="red",
summary="orange",
text="forestgreen"))
par(op) # reset parameters
Of course if someone have better idea to import data - not trough csv file no
problem any format is OK - data frame or something else and to make forest plot
... no problem ... I need them on the forest plot.
Greetings...
Peter Boolton
MCA adcc..
At 15:59 16/11/2006, Peter Bolton wrote:>Hello! >I have some data stored into 2 separate csv file. 1 file (called >A.csv) (12 results named Group1, Group2, Group3, etc...) odds >ratios, 2 file (called B.csv) 12 corresponded errors. >How to import that data into R and make forest plot like I saw >inside help file Rmeta and meta with included different font colors >and names trough X and Y axis.You need to show us what you tried, and why it did not do what you want, for us to be able to point you in the right direction. I think you also need to get a good book on meta-analysis if you think that meta.MH from rmeta is the right tool for your datset @BOOK{sutton00, author = {Sutton, A J and Abrams, K R and Jones, D R and Sheldon, T A and Song, F}, year = 2000, title = {Methods for meta-analysis in medical research}, publisher = {Wiley}, address = {Chichester}, keywords = {meta-analysis, general} } may help you.>I know for meta libb >... >out <- metagen(name1,name2) >plot(out,xlab="abcd") >.... > >But I need for my data to look like this? (copy from help file rmeta) > >library(rmeta) >op <- par(lend="square", no.readonly=TRUE) >data(catheter) >a <- meta.MH(n.trt, n.ctrl, col.trt, col.ctrl, data=catheter, > names=Name, subset=c(13,6,5,3,7,12,4,11,1,8,10,2)) ># angry fruit salad >metaplot(a$logOR, a$selogOR, nn=a$selogOR^-2, a$names, > summn=a$logMH, sumse=a$selogMH, sumnn=a$selogMH^-2, > logeffect=TRUE, colors=meta.colors(box="magenta", > lines="blue", zero="red", summary="orange", > text="forestgreen")) >par(op) # reset parameters > >Of course if someone have better idea to import data - not trough >csv file no problem any format is OK - data frame or something else >and to make forest plot ... no problem ... I need them on the forest plot. >Greetings... >Peter Boolton >MCA adcc..Michael Dewey http://www.aghmed.fsnet.co.uk
At 17:58 20/11/2006, you wrote:>Hi Michael..here`s sample data.: library(meta) >odds<-c( 0.03, 0.12, -0.14, 1.18, 0.26, -0.06, -0.02, >-0.32, 0.27, 0.80, 0.54, 0.18, -0.02, 0.23, -0.18, >-0.06, 0.30, 0.07, -0.07 ) errs<-c( 0.125, 0.147, 0.167, >0.373, 0.369, 0.103, 0.103, 0.220, 0.164, 0.251, 0.302, 0.223, >0.289, 0.290, 0.159, 0.167, 0.139, 0.094, 0.174 ) out <- >metagen(odds,errs) plot(out,xlab="test") I don`t know how to put >names Group1,2,3 inside graph ... and different colors trough x and >y axis.? -----I do not use meta myself (I use rmeta) but what happens when you use the studlab parameter? I do not understand what you mean by different colours for the x and y axis.>Original Message ---- From: Michael Dewey <info at aghmed.fsnet.co.uk> >To: Peter Bolton <peterboolton at yahoo.com>; r-help at stat.math.ethz.ch >Sent: Friday, November 17, 2006 2:30:37 PM Subject: Re: [R] Newbie >problem ... Forest plot At 15:59 16/11/2006, Peter Bolton >wrote: >Hello! >I have some data stored into 2 separate csv file. 1 >file (called >A.csv) (12 results named Group1, Group2, Group3, >etc...) odds >ratios, 2 file (called B.csv) 12 corresponded >errors. >How to import that data into R and make forest plot like I >saw >inside help file Rmeta and meta with included different font >colors >and names trough X and Y axis. You need to show us what you >tried, and why it did not do what you want, for us to be able to >point you in the right direction. I think you also need to get a >good book on meta-analysis if you think that meta.MH from rmeta is >the right tool for your datset @BOOK{sutton00, author = {Sutton, >A J and Abrams, K R and Jones, D R and Sheldon, T A >and Song, F}, year = 2000, title = {Methods for >meta-analysis in medical research}, publisher = >{Wiley}, address = {Chichester}, keywords = {meta-analysis, >general} } may help you. >I know for meta libb >... >out <- >metagen(name1,name2) >plot(out,xlab="abcd") >.... > >But I need for >my data to look like this? (copy from help file >rmeta) > >library(rmeta) >op <- par(lend="square", >no.readonly=TRUE) >data(catheter) >a <- meta.MH(n.trt, n.ctrl, >col.trt, col.ctrl, data=catheter, > names=Name, >subset=c(13,6,5,3,7,12,4,11,1,8,10,2)) ># angry fruit >salad >metaplot(a$logOR, a$selogOR, nn=a$selogOR^-2, >a$names, > summn=a$logMH, sumse=a$selogMH, >sumnn=a$selogMH^-2, > logeffect=TRUE, >colors=meta.colors(box="magenta", > lines="blue", >zero="red", >summary="orange", > text="forestgreen")) >par(op) # >reset parameters > >Of course if someone have better idea to import >data - not trough >csv file no problem any format is OK - data frame >or something else >and to make forest plot ... no problem ... I need >them on the forest plot. >Greetings... >Peter Boolton >MCA adcc.. >Michael Dewey http://www.aghmed.fsnet.co.uk >____________________________________________________________________________________ >Sponsored Link $420k for $1,399/mo. Think You Pay Too Much For Your >Mortgage? Find Out! www.LowerMyBills.com/lre > > > >-- >No virus found in this incoming message. >Checked by AVG Free Edition. >Version: 7.1.409 / Virus Database: 268.14.12/544 - Release Date: 21/11/2006Michael Dewey http://www.aghmed.fsnet.co.uk
At 15:16 22/11/2006, you wrote:>When I use studlab parameter I don`t have (don't know how to put) >names inside graph, X and Y axis, and I have Black/White forest >plot, and I need colored.1 - please cc to r-help so that others can learn from your experience 2 - when you use the studlab parameter what happens, and how does that differ from what you wanted to happen? Michael Dewey http://www.aghmed.fsnet.co.uk