the model.
>
>
> --
> Frank E Harrell Jr Professor and Chairman School of Medicine
>
> Department of *Biostatistics* *Vanderbilt University*
>
> On Thu, Jun 2, 2016 at 10:55 AM, Steve Lianoglou <lianoglou.st...@gene.com>
> wrote:
>
>> Hello foks,
>
orm_1.0-5
[28] foreign_0.8-66 chron_2.3-47 zoo_1.7-13
===
Thanks,
-steve
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and more, see
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Hi Madhvi,
First, please use reply-all when responding to emails form this list
so that others can help (and benefit from) the discussion.
Comment down below:
On 26 Aug 2014, at 22:15, madhvi.gupta wrote:
On 08/27/2014 10:42 AM, Steve Lianoglou wrote:
Hi,
On Tue, Aug 26, 2014 at 9:56 PM
data after you convert it to a numeric
-steve
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=ioscommit=Search
HTH,
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Steve Lianoglou lianoglou.st...@gene.com 4/11/2014 5:23 PM
Hi,
On Fri, Apr 11, 2014 at 2:00 PM, John Sorkin
jsor...@grecc.umaryland.edu wrote:
I bemoan the fact that I can not run R or Rstudio on my iPad.
I feel like
file, I think it would be easier for us if you
copy/paste the output of `dput(targets)` and `dput(design)` after you
create those object in a follow up email if it's necessary to write
one.
HTH,
-steve
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commented, minimal, self-contained, reproducible code.
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]) == 3) 0)
Unwind that one liner into it's individual parts to see who is doing
what there.
HTH,
-steve
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PLEASE do read
(whatever it might be).
w * score
}, by='id']
HTH,
-steve
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to host it, though.
Given SO's critical mass, though, I think it's hard to argue against
simply using that.
-steve
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provided several answers.
This post in particular has a few answers from some people who know
what they're doing w/ R, so probably a good place to start:
http://stackoverflow.com/questions/1401904/painless-way-to-install-a-new-version-of-r-on-windows
HTH,
-steve
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Hi,
On Mon, Sep 30, 2013 at 12:44 PM, Ista Zahn istaz...@gmail.com wrote:
On Mon, Sep 30, 2013 at 2:49 PM, Steve Lianoglou
lianoglou.st...@gene.com wrote:
Hi,
On Mon, Sep 30, 2013 at 11:12 AM, Cem Girit gi...@comcast.net wrote:
Hello,
I recently installed version 3.0.1
Hi,
On Thu, Aug 29, 2013 at 3:03 PM, Rolf Turner rolf.tur...@xtra.co.nz wrote:
On 29/08/13 12:10, Ista Zahn wrote:
On Wed, Aug 28, 2013 at 7:44 PM, Steve Lianoglou
lianoglou.st...@gene.com wrote:
Hi,
On Wed, Aug 28, 2013 at 3:58 PM, Ista Zahn istaz...@gmail.com wrote:
Or go all the way
go the nuclear-global-override route.
-steve
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, self-contained, reproducible code.
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,
-steve
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Best regards and again thank you for the help,
Paul
El 18/08/2013 02:35, Steve Lianoglou lianoglou.st...@gene.com escribió:
Hi Paul,
First: please keep your replies on list (use reply-all
so much Steve.
The computer I'm currently working with is a 32 bit windows 7 OS. And RAM
is only 4GB so I guess thats a big limitation.
El 18/08/2013 03:11, Steve Lianoglou lianoglou.st...@gene.com
escribió:
Hi Paul,
On Sun, Aug 18, 2013 at 12:56 AM, Paul Bernal paulberna...@gmail.com
and insidious adversary and taking steps to ensure you are
getting what you want (whether using an index on a data.table, or some
combo of split + max/which.max) probably is a good way to go.
My 2 cents,
-steve
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for the heavily degraded
performance you're observing... our R data.table versions also
match.
-steve
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-steve
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PLEASE do read
package:
http://plyr.had.co.nz
And read through this relevant chapter in Hadley's book:
https://github.com/hadley/devtools/wiki/functionals#data-structure-functionals
It will take you through looping, to *apply-ing, to plyr-ing
HTH,
-steve
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Or with plyr:
R library(plyr)
R ans - ddply(x, .(Date), function(df) df[which.max(df$Time),])
-steve
On Wed, Aug 14, 2013 at 2:18 PM, Steve Lianoglou
lianoglou.st...@gene.com wrote:
While we're playing code golf, likely faster still could be to use
data.table. Assume your data
me out.
How about something like:
loop - if (ChooseFn) lapply else sfLapply
result - loop(MyList, function(x) {
## ...
})
Should work as long as `sfLapply` has same function signature as lapply.
HTH,
-steve
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can try that.
HTH,
-steve
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Unfortunately it doesn't look like any of them support the equivalent
of family=multinomial, only 2-class classification.
HTH,
-steve
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, self-contained, reproducible code.
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) and monitor the R process as it's
running, I reckon that's what you'll see, too.
HTH,
-stee
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R plot(ee, main=NULL)
-steve
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provides a fast way to compute partial singular value
decompositions (SVD) of large matrices ...
HTH,
-steve
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case -- I guess you would reduce your feature
matrix for that fold, run the goods, then drop the coefs back into the
original columns they'd belong to as if you ran the training on the
full feature matrix.
Know what I mean?
HTH,
-steve
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into an email that reconstructions a small version of
your data.table (maybe 5-10 columns and one or two groups) it'd be
more clear for me.
Thanks,
-steve
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iteration is more
involved, the benefit of parallelization will become more clear.
-steve
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a brief explanation (code would be helpful) of what you
are trying to do?
-steve
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where things are going
south.
-steve
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/wiki/Konami_Code
:-)
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[[alternative HTML version deleted
to help you
with).
Also, emacs/ess also has tracebug:
http://code.google.com/p/ess-tracebug/
which may be useful.
anyway ... if you are leaving R for greener pastures, do us a favor
and send us an email w/ an update if you find Nirvana in another
language ;-)
-steve
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to help, tho.
-Steve
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[[alternative HTML version deleted
will get better, so ... stay strong.
-steve
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:
Le dimanche 02 décembre 2012 à 06:02 -0500, Steve Lianoglou a écrit
:
Hi,
On Sun, Dec 2, 2012 at 12:31 AM, Worik R wor...@gmail.com wrote:
What I mean is how do I get the R compilation or execution
process to spit
out a line number with errors and warnings?
Indeed, I
Hi,
On Tue, Nov 27, 2012 at 11:29 AM, Sam Steingold s...@gnu.org wrote:
* Steve Lianoglou znvyvatyvfg.ubarl...@tznvy.pbz [2012-11-26 19:47:25
-0500]:
[snip]
It just occurred to me that this is even better:
R setkeyv(f, c(share.id, delay))
R result - f[, list(min=delay[1L], max=delay[.N
, just trying to better understand.
-steve
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: the cbind-ing thing
-Steve
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[[alternative HTML version deleted
Hi Peter,
On Tue, Nov 27, 2012 at 8:05 PM, Peter Ehlers ehl...@ucalgary.ca wrote:
On 2012-11-27 14:34, Steve Lianoglou wrote:
[snip]
Steve:
re a matrix response: see MASS (the book, 4ed) page 191; also found
in the ch07.R file in the /library/MASS/scripts folder. I seem to
recall
Hi Sam,
On Mon, Nov 26, 2012 at 3:13 PM, Sam Steingold s...@gnu.org wrote:
Hi,
* Steve Lianoglou znvyvatyvfg.ubarl...@tznvy.pbz [2012-11-19 13:30:03
-0800]:
For instance, if you want the min and max of `delay` within each group
defined by `share.id`, and let's assume `infl
), I wonder if this two-step would be
faster?
R setkeyv(f, c('share.id', 'country'))
R r1 - f[, list(min=min(delay), max=max(delay), count=.N), by='share.id']
R result - unique(f)[r1] ## I think
-steve
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Why do you never call me back after I scream that I will never talk to you
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, you
can do something like so:
R as.data.table(infl)
R setkey(infl, share.id)
R result - infl[, list(min=min(delay), max=max(delay)), by=share.id]
HTH,
-steve
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://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
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history in a file, so
that I can choose from previous commands?
The web did not throw up anything useful.
Out of curiosity, when you call:
R capabilities()['cledit']
Do you get `FALSE`?
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On Wed, Oct 10, 2012 at 12:52 PM, Christian Hoffmann
c-w.hoffm...@sunrise.ch wrote:
Am 10.10.12 18:17, schrieb Steve Lianoglou:
Hi,
On Wed, Oct 10, 2012 at 12:03 PM, Christian Hoffmann
c-w.hoffm...@sunrise.ch wrote:
Hi,
history()
gives Error in savehistory(file) : no history available
- embed(x, e) ## Take a look at this matrix
R r - apply(e, 1, rle)
R sapply(r, function(rr) rr$lengths[1])
## [1] 1 1 2 3 3 3 3 1 1
If your input vector (`x` here) is large, the call to `embed` may be painful.
HTH,
-steve
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Ugh, typo:
On Mon, Oct 8, 2012 at 10:04 AM, Steve Lianoglou
mailinglist.honey...@gmail.com wrote:
R x - c(NA, 1, NA, 1, 1, 1, 1, 1, 1, NA, 1)
R e - embed(x, e) ## Take a look at this matrix
R r - apply(e, 1, rle)
R sapply(r, function(rr) rr$lengths[1])
## [1] 1 1 2 3 3 3 3 1 1
it is applicable in your case as well (in which
case you might be able to rig up AWS to help you).
HTH,
-steve
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.
-steve
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used
plyr and data.table like stuff, so I might be missing your end goal --
providing a reproducible example with a small data.frame from you can
help here (for me at least).
HTH,
-steve
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for this error?
I suspect you just have to ensure that the thing you are passing in to
the `dataf2` parameter is in fact a data.frame -- the error you are
getting suggests that it is currently not.
Also -- have no fear for the space bar, it is your friend ;-)
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eventually do that myself.
Hope that helps,
-steve
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]{
\includegraphics[...]{figs/gen-someFig.pdf}
}
...
\end{figure}
does the trick for me.
HTH,
-steve
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...}
HTH,
-steve
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they save space over characters --
I believe that this is no longer true, but I'm not certain.
-steve
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='hello', c=matrix(1:100, nrow=10))
-steve
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:
http://cran.r-project.org/web/packages/RInside/index.html
Keep in mind that R is released under the GPL, so depending on what
your end game is for your software (are you making a commercial
product?), this may or may not be an issue for you.
-steve
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and provide commented, minimal, self-contained, reproducible code.
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a presentation of caret:
http://files.meetup.com/1542972/Max_caret_NYCPA.pdf
HTH,
-steve
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(...)
cat(There are, length(args), items passed in here\n)
}
R howMany(1, 2, 3, 4)
There are 4 items passed in here
R howMany(10, list(1:10))
There are 2 items passed in here
-steve
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:
do.call(interval_intersection, my.interval.list)
yay/nay?
-steve
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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.
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of trying something
There is a chance it might result in an error
No error occurred while trying something
~
Does that help?
-steve
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example code, so this suggestion is far more
general, but you might try something along the lines of:
x[which(is.na(x))] - 0
Random note from left field: the call to `which` is unnecessary here.
-steve
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these objects in your workspace and copy/paste the output of
dput on your m1 and m2 matrices so we can easily work w/ them.
Cheers,
-steve
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Contact
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PLEASE do read the posting guide
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do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
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-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
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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.
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
and provide commented, minimal, self-contained, reproducible code.
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact
the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info
would be a better place to post
such UN-expert opinion?
I didn't realize you were also an expert on foreign affairs? Nice.
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact
the
vignettes of the following packages to see which one might suit you
best:
* Gviz
* ggbio
* GenomeGraphs
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org
guess you probably figured that out by now, but just wanted to point that out.
HTH,
-steve
On Sun, Apr 22, 2012 at 4:05 PM, Steve Lianoglou
mailinglist.honey...@gmail.com wrote:
On Sun, Apr 22, 2012 at 7:03 AM, Yellow s1010...@student.hsleiden.nl wrote:
I figured out something new that I would
thise ID numbers also?
Seems like there were already a few suggestions in this thread, but
I'm surprised no one has suggested the use of `subset` yet, see
?subset:
R interesting - subset(DataFile, log2 = 7)$ID
Now play with the `interesting` data.frame to get the data you need
-steve
--
Steve
deleted]]
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R-help@r-project.org mailing list
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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.
--
Steve
something like this do?
R title.line - readLines('file.rta', n=1)
R dat - read.table('file.rta', skip=1, header=TRUE, ...)
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell
not 100% sure they have what you're looking for, but as I said ...
it's worth checking out.
-steve
On Wed, Mar 28, 2012 at 9:54 AM, Steve Lianoglou
mailinglist.honey...@gmail.com wrote:
Hi,
These suggestions still require you to explicitly compute your feature
space or kernel matrix first
) of the model you are building,
then it's time to pull yourself away from the keyboaRd and start doing
some reading, or (as Bert will likely tell you) consult your local
statistician.
HTH,
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
the installation process the error occurs.
Thanks,
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact
word appears).
You can maybe get smarter and try to group like words together, but
... now you'll have two problems ...
Hope you have lots of data!
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College
.
This is probably a good place for you to start looking:
http://cran.r-project.org/web/views/Optimization.html
HTH,
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http
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