statement needed for each column to make filtering on it optional? etc
Any one with the patience to show their working version of such a
funciton would receive my undying Rdulation. With thanks in advance,
Karl
--
Karl Brand
Dept of Cardiology and Dept of Bioinformatics
Erasmus MC
Dr
, a)))
iA - if(is.na(A)) TRUE else f(A)(data$A)
iB - if(is.na(B)) TRUE else f(B)(data$B)
iC - if(is.na(C)) TRUE else f(C)(data$C)
data[iA iB iC, ]
}
func(eg, 0, NA, NA)
func(data=eg, A= 0, B= 1, C= 0)
Hope this helps,
Rui Barradas
Em 06-12-2012 13:49, Karl Brand escreveu
#. with
/Software/Embedded Controllers) .OO#. .OO#. rocks...1k
---
Sent from my phone. Please excuse my brevity.
Karl Brand k.br...@erasmusmc.nl wrote:
Esteemed UseRs,
I've got many biggish data frames
O.O#. #.O#. with
/Software/Embedded Controllers) .OO#. .OO#. rocks...1k
---
Sent from my phone. Please excuse my brevity.
Karl Brand k.br...@erasmusmc.nl wrote:
Hi Jeff,
Subset
, fill=NA)
Jan
On 05/07/2012 12:30 PM, Karl Brand wrote:
Dimitris, Petra,
Thank you! aggregate() is my lesson for today, not melt() | cast()
Really appreciate the super fast help,
Karl
On 07/05/12 12:09, Dimitris Rizopoulos wrote:
you could try aggregate(), e.g.,
my.df - data.frame(pathway
),
cond.one = c(0.5, 0.4, NA),
cond.two = c(0.6, 0.9, 0.2),
cond.three = c(NA, 0.1, NA))
wanted.df
--
Karl Brand
Dept of Cardiology and Dept of Bioinformatics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 703 2460 |M +31 (0)642 777 268 |F
it helps.
Best,
Dimitris
On 5/7/2012 11:50 AM, Karl Brand wrote:
Esteemed UseRs,
This must be embarrassingly trivial to achieve with e.g., melt() and
cast(): deduplicating records (pw.X in example) for a given set of
responses (cond.Y in example).
Hopefully the runnable example shows clearly
simple steps you suggest. Also good to know that Java 1.7 can be
used with the latest R (which is all i intend to install).
Thanks again for the follow up,
Karl
On 02/20/2012 03:37 AM, Simon Urbanek wrote:
On Feb 19, 2012, at 4:31 PM, Karl Brand wrote:
Hi Hasan,
Success. For myself and FWIW
. But lacks enough explicit details for myself to be able use.
A previous response indicated R javareconf -- this is the only
configuration you should need. Let me know if you have further
problems.
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 704
base packages:
[1] stats graphics grDevices utils datasets methods base
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 704 3455 |F +31 (0)10 704 4743 |M +31 (0)642 777 268
__
R-help@r
to be able use.
Thanks again, also for any further suggestions,
Karl
On 02/18/2012 07:45 PM, Simon Urbanek wrote:
On Feb 18, 2012, at 10:44 AM, Karl Brand wrote:
Esteemed useRs and Devs,
Attempts to update package:rJava to the latest version have failed. See my code
and output below.
Notably
R and install.packages.
Then I quit R and su and continue with what I want.
hope this helps.
Spencer
On 9/7/2011 5:11 AM, Karl Brand wrote:
Cheers Paul.
Its a very good point. Although i am curious how badly i can damage my
R install by running as root. I always ran R in windows with admin
on efficient package installation/maintenance
using Emacs/ESS.
TIA,
karl
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3455 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
On 2011-09-07 11:02, Paul Hiemstra wrote:
On 09/07/2011 08:54 AM, Karl Brand wrote:
Esteemed UseRs and DevelopeRs,
Apologies if this question belongs else where, but it does concern R's
package installation/maintenance.
How does one start R within Emacs/ESS with root privileges?
I tried without
-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3455 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
times the best way to get
it just right is using more basic functions, which for heatmaps would be
image(). See:
https://www.stat.math.ethz.ch/pipermail/bioconductor/2010-August/034995.html
hth,
karl
On 04/18/2011 10:38 AM, chakri2...@yahoo.co.in wrote:
Dear Karl Brand,
I am facing same
://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.
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0
6:08 PM, William Dunlap wrote:
Try
by=rownames
instead of
by=rownames
Bill Dunlap
Spotfire, TIBCO Software
wdunlap tibco.com
-Original Message-
From: r-help-boun...@r-project.org
[mailto:r-help-boun...@r-project.org] On Behalf Of Karl Brand
Sent: Wednesday, December 01, 2010 6
On 12/2/2010 11:36 AM, David Winsemius wrote:
On Dec 2, 2010, at 5:22 AM, Karl Brand wrote:
Cheers Bill.
You got me halfway, since:
temp - merge(x=x, y=y[,17, drop=FALSE], by=rownames, sort=FALSE)
Error in fix.by(by.x, x) : 'by' must specify valid column(s)
but, using row.names instead
On 12/2/2010 3:52 PM, David Winsemius wrote:
On Dec 2, 2010, at 5:58 AM, Karl Brand wrote:
On 12/2/2010 11:36 AM, David Winsemius wrote:
On Dec 2, 2010, at 5:22 AM, Karl Brand wrote:
Cheers Bill.
Inserting earlier debris:
I don't understand why i get this error message when
wdunlap tibco.com
-Original Message-
From: Karl Brand [mailto:k.br...@erasmusmc.nl]
Sent: Thursday, December 02, 2010 2:22 AM
To: William Dunlap
Cc: r-help@r-project.org; Dimitris Rizopoulos
Subject: Re: [R] attempted merge() returns: cannot coerce
type 'closure' to vector of type 'any
- cbind(x, y[match(rownames(x), rownames(y)),17])
All insights appreciated for this leaRner,
cheers,
Karl
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3211 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
., the 'h', 'c' and 'l' (and 'alpha' if appropriate) values for a
given color/shade??
Thanks again and in advance for any further pointers,
Karl
On 10/10/2010 10:41 PM, Paul Murrell wrote:
Hi
On 11/10/2010 9:01 a.m., Karl Brand wrote:
Dear UseRs and DevelopeRs
It would be helpful to see
- venneuler(c(A=1, B=2, C=3, AC=0.5, ABC=0.1))
class(ve)
[1] VennDiagram
ve$colors - c(red, green, blue)
plot(ve)
Error in col * 360 : non-numeric argument to binary operator
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 704 3457 |F +31 (0
/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.
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409
locations within the circles?
and unions?
-specify circle colors?
-specify label font, size color?
All thoughts and response's greatly appreciated, cheers,
Karl
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31
to start for an image like this.
I'd really appreciate suggestions help on how might achieve this using R,
Karl
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 704 3457 |F +31 (0)10 704 4743 |M +31 (0)642 777 268
anything obvious for me...yet).
Sincere thanks for help thus far, and welcome any further pointers,
Karl
On 9/12/2010 4:50 PM, Duncan Murdoch wrote:
On 12/09/2010 10:12 AM, Karl Brand wrote:
Esteemed useRs and developeRs,
I need to create a '3D line plot' (proper name?) of which an excellent
and suggestions sincerely appreciated,
Karl
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 704 3457 |F +31 (0)10 704 4743 |M +31 (0)642 777 268
__
R-help@r-project.org mailing list
https://stat.ethz.ch
Cheers Duncan, for your FAST answers and patience. (fast patience?!)
I was close. But closer reading of ?save would also have worked i see
now :$. LETTERS[] = :)
thanks again,
Karl
On 9/11/2010 2:10 PM, Duncan Murdoch wrote:
On 11/09/2010 8:00 AM, Karl Brand wrote:
Esteemed R users
.
-Original Message-
From: Karl Brand [mailto:k.br...@erasmusmc.nl]
Sent: Monday, 6 September 2010 6:46 PM
To: Venables, Bill (CMIS, Cleveland)
Cc: gaut...@yahoo.com; r-help@r-project.org
Subject: Re: [R] how do I transform this to a for loop
Hi Bill,
I didn't make the original post, but its pretty
(1,1,1))
arima9- arima(data.ts[40:240], order = c(1,1,1))
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
__
R-help@r-project.org
))
result_list = lapply(sseq, function(num) {
arima(data.ts[num:(num+200)], order=c(1,1,1))
})
cheers,
Paul
On 09/06/2010 10:46 AM, Karl Brand wrote:
Hi Bill,
I didn't make the original post, but its pretty similar to some thing
i would have queried the list about. But, as an R dilatante i find
(list=ls()) removes all R objects in the R work space.
Another question is that whether removing all R objects actually releases
the RAM? Thanks.
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31 (0)10 704 4743
functions? I think my PCA would
certainly appear a lot more '3d' with such a shaded box axis.
tia,
Karl
*
http://tolstoy.newcastle.edu.au/R/e10/help/att-3419/vol_surface.png
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704
,
density.info = none,
margins=c(12, 8))
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
__
R-help@r-project.org
:42 PM, Karl Brand wrote:
Esteemed R-users,
heatmap.2() is yielding an inappropriate key based on my colors and
break-points.
In the reproducible example below, the key is inappropriate (to me)
because-
1. 'Orange' is simply not represented in the key, despite its prescence
in the heatmap.
2
suggestions or pointers to helpful resources greatly appreciated,
Karl
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 704 3457 |F +31 (0)10 704 4743 |M +31 (0)642 777 268
__
R-help@r-project.org
tools_2.10.1
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
__
R-help@r-project.org mailing list
https://stat.ethz.ch/mailman
:
There was an error opening this document. This file cannot be opened
because it has no pages.
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
), rnorm(20),
xlab = Results 3 (Int),
ylab = Variable C)
par(mar=rep(0,4))
plot.new()
text( .5, .5, Results 1 (Int), font=2, cex=1.5 )
plot.new()
text( .5, .5, Results 2 (Int), font=2, cex=1.5 )
plot.new()
text( .5, .5, Results 3 (Int), font=2, cex=1.5 )
--
Karl Brand
Jim,
What a great function: exactly as i needed.
I'm sure i'll be finding alot of use for the plotrix package.
Sincere thanks for your fast help, cheers,
Karl
On 6/27/2010 8:52 AM, Jim Lemon wrote:
On 06/26/2010 11:20 PM, Karl Brand wrote:
Dear List,
I'd really appreciate tip's or code
),
ylab = Variable B)
#Graph 5:
plot(rnorm(20), rnorm(20),
xlab = Results 3 (Int),
ylab = Variable C)
#Graph 6:
plot(rnorm(20), rnorm(20),
xlab = Results 3 (Int),
ylab = Variable C)
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10
something
about the structure of the design, for example whether the effects (A
and B, here) are treatments, blocks, nested effects, or repeated
measures.
Simple effects are usually interpretable. Interactions are tougher.
Rich
https://mail.google.com/a/temple.edu/?AuthEventSource=SSO#inbox
--
Karl
a problem and
then the resolution
of the problem.
install.packages(HH) ## if you don't have it yet.
library(HH)
?MMC
Rich
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
on the right track
BUT! Most basically, the contrasts i can NOT work out are:
t1.S.CvsAll.Times t1.L.CvsAll.Times
ie., similar to t1.S.RvsAll.Times t1.S.RvsAll.Times above but for the
C tissue, not the S.
--
Karl Brand k.br...@erasmusmc.nl
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
#'the answer'
print(prK)
[1] NaN
a
[1] 7.985852e+65
b
[1] Inf
z
[1] Inf
--
Karl Brand
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
T +31 (0)10 704 3457 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
__
R-help@r-project.org
example.
-Peter Ehlers
On 2010-03-30 9:55, Charles C. Berry wrote:
On Tue, 30 Mar 2010, Karl Brand wrote:
Dear R Users,
I employed the phyper() function to estimate the likelihood that the
number of genes overlapping between 2 different lists of genes is due
to chance. This appears to work
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