Thanks,
It seems for loop spends less time ;)
with
dim(DataFrame)
[1] 338 70
For loop has
user system elapsed
0.012 0.000 0.012
and apply has
user system elapsed
0.020 0.000 0.021
Ô__
c/ /'_;kmezhoud
(*) \(*) ⴽⴰⵔⵉⵎ ⵎⴻⵣⵀⵓⴷ
http://bioinformatics.tn/
On Wed, Dec
I do not understand the value of using the rle function in your
description, but the code below appears to produce the table you want.
Note that better support for the data.table package might be found at
stackexchange as the documentation specifies.
x - read.table( text=
Dad Mum Child Group
You should reply to the R-help list and not only to me .
yo in your answer to me does not correspond with the original mail.
It’s not possible to make sense of your code.
Berend
On 31-12-2014, at 10:14, thanoon younis thanoon.youni...@gmail.com wrote:
thank you for your response
N-2000;
On 12/31/2014 12:22 AM, Karim Mezhoud wrote:
Thanks,
It seems for loop spends less time ;)
with
dim(DataFrame)
[1] 338 70
For loop has
user system elapsed
0.012 0.000 0.012
and apply has
user system elapsed
0.020 0.000 0.021
The timings are so short that the answer
On Tue, 30 Dec 2014, jim holtman wrote:
Try this:
x - read.csv(text = Date,Open,High,Low,Close,Volume,Adj Close
+ 2014-12-26,162.27,163.09,162.01,162.34,1912200,162.34
+ 2014-12-24,162.88,162.99,161.61,161.82,1868100,161.82
+ 2014-12-23,162.23,162.90,161.61,162.24,4043300,162.24
+
Many Many Many thanks!
it is a demonstrative lesson. I need time to test all examples :)
Thank you for your time and support.
Happy and Healthy New Year
Ô__
c/ /'_;kmezhoud
(*) \(*) ⴽⴰⵔⵉⵎ ⵎⴻⵣⵀⵓⴷ
http://bioinformatics.tn/
On Wed, Dec 31, 2014 at 2:38 PM, Martin Morgan
Windows 7
Colleagues,
I used the fix() function to edit an existing function when using RStudio.
After editing the function, I am given the option to SAVE the modified
function. I would like to know (1) where the modified function is stored (the
save button does not have an option to specify
Concretely I request cbioportal through cgsdr package.
Depending of Cases and Genetic profiles I receive in general data.frame
with heterogeneous structure. The bad one if the returned data.frame is
composed by numeric and character columns. in this case numeric columns are
considered as factor.
Hi,
On Wed, Dec 31, 2014 at 11:24 AM, John Sorkin
jsor...@grecc.umaryland.edu wrote:
Windows 7
Colleagues,
I used the fix() function to edit an existing function when using RStudio.
After editing the function, I am given the option to SAVE the modified
function. I would like to know (1)
Yes the last one this the best. But I need to test if returned data.frame
is with factor or character:
cidx - sapply(df, is.factor) or cidx - sapply(df, is.character)
Thanks
Ô__
c/ /'_;kmezhoud
(*) \(*) ⴽⴰⵔⵉⵎ ⵎⴻⵣⵀⵓⴷ
http://bioinformatics.tn/
On Wed, Dec 31, 2014 at 5:24 PM, Karim
for both
cidx - !(sapply(df, is.numeric))
df[cidx] - lapply(df[cidx], as.numeric)
Ô__
c/ /'_;kmezhoud
(*) \(*) ⴽⴰⵔⵉⵎ ⵎⴻⵣⵀⵓⴷ
http://bioinformatics.tn/
On Wed, Dec 31, 2014 at 5:51 PM, Karim Mezhoud kmezh...@gmail.com wrote:
Yes the last one this the best. But I need to test if
But this heterogeneity comes even with only supposed numeric data.frame
(gene expression). here an example
ibrary(cgdsr)
GeneList - c(DDR2, HPGDS, MS4A2,SSUH2,MLH1 ,MSH2, ATM
,ATR, MDC1 ,PARP1)
cgds-CGDS(http://www.cbioportal.org/public-portal/;)
str(getProfileData(cgds,GeneList,
Thanks, please find what I got:
str(getProfileData(cgds,GeneList,
stad_tcga_methylation_hm27,stad_tcga_methylation_hm27))
'data.frame':48 obs. of 10 variables:
$ ATM : num NA NA NA NA NA NA NA NA NA NA ...
$ ATR : num NA NA NA NA NA NA NA NA NA NA ...
$ DDR2 : num 0.714 0.857 0.549
Hi,
i am running a model without covariates, along with shape file and
neighbourhood matrix,
i am facing difficulty to edit this code for 34 provinces, can any help me
to edit this below given code.
FinalModels_WINScriptToRunModel_AllMetrics v2 final_20141205
inits1-list(precu =
Hi,
I am trying to do nonlinear minimization using nlm() function, but for
large amount of data it is going out of memory.
Code which i am using:
f-function(p,n11,E){
sum(-log((p[5] * dnbinom(n11, size=p[1], prob=p[2]/(p[2]+E)) +
(1-p[5]) * dnbinom(n11, size=p[3],
Help with finding tutors for Linux, R, Perl, Python MATLAB and/or Cytoscape
for yeast microarray analysis, next generation sequencing and constructing
gene interaction networks
Hi
I am a visually impaired bioinformatics graduate student using microarray
data for my master’s thesis aimed
This is probably a FAQ, and I don't really have a question about it, but I
just ran across this in something I was working on:
as.integer(1000*1.003)
[1] 1002
I didn't expect it, but maybe I should have. I guess it's about the
machine precision added to the fact that as.integer always
When I try to save a file, I get Permission denied.
Can someone let me know why this happens?
I am running under Windows 7, Rstudio
save(TheResults,file=c:\\data)
Error in gzfile(file, wb) : cannot open the connection
In addition: Warning message:
In gzfile(file, wb) :
cannot open
On 31/12/2014 6:29 PM, John Sorkin wrote:
When I try to save a file, I get Permission denied.
Can someone let me know why this happens?
I am running under Windows 7, Rstudio
save(TheResults,file=c:\\data)
Error in gzfile(file, wb) : cannot open the connection
In addition: Warning
On Dec 31, 2014, at 3:24 PM, Mike Miller wrote:
This is probably a FAQ, and I don't really have a question about it, but I
just ran across this in something I was working on:
as.integer(1000*1.003)
[1] 1002
I didn't expect it, but maybe I should have. I guess it's about the machine
On Dec 31, 2014, at 3:29 PM, John Sorkin wrote:
When I try to save a file, I get Permission denied.
Because your OS does not allow you to save things there. Since you are
specifying an absolute path, R is not using your working directory. You may
want to read the help pages for:
Because the root directory is not a place for saving your files in. Put your
files in your Documents directory.
---
Jeff NewmillerThe . . Go Live...
DCN:jdnew...@dcn.davis.ca.us
How can I unsubscribe to not receive loop e mails?
Sent from my Huawei Mobile
David Winsemius dwinsem...@comcast.net wrote:
On Dec 31, 2014, at 3:24 PM, Mike Miller wrote:
This is probably a FAQ, and I don't really have a question about it, but I
just ran across this in something I was
Read the message at the bottom of every message from rhelp.
--
David.
On Dec 31, 2014, at 8:09 PM, Zaid Bhatti wrote:
How can I unsubscribe to not receive loop e mails?
Sent from my Huawei Mobile
David Winsemius dwinsem...@comcast.net wrote:
On Dec 31, 2014, at 3:24 PM, Mike Miller
David,
I checked getwd()
and tried to save to the directory. It did not work:
getwd()
[1] C:/Users/John/Documents
save(TheResults,file=c:\\users\\john\\documents)
Error in gzfile(file, wb) : cannot open the connection
In addition: Warning message:
In gzfile(file, wb) :
cannot open compressed
Windows 7
I am running normalmixEM to fit two normal curves to my data. For some reason,
that I don't understand, the results of running the function twice, on the same
data, results in two different (although similar) sets of values. I would
expect the function run twice on the same data
Best,
Zaid Bhatti
Sr. Data Analyst
Department of Paediatrics and Child Health
The Aga Khan University
Stadium Road, Karachi-74800, Pakistan.
Tel: +92 213 2005466
Cell: +92 (0) 345 2573155
---
This e-mail may contain information
As you were told before: read the message at the very end of each message to
R-help:
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
Berend
On 01-01-2015, at 06:20, Zaid Bhatti zaid.bha...@aku.edu wrote:
Best,
You are attempting to save a file on top of a directory, which is fortunately
protected from your mistake. Try adding a filename to the path you are saving
to.
save(TheResults,file=c:\\users\\john\\documents\\test.rda)
Is it possible to add the following code or similar in data.table:
childseg-0
x:=sumchild -0
span-rle(x)$lengths[rle(x)$values==TRUE
childseg[x]-rep(seq_along(span), times = spanLOH)
childseg[childseg == 0]-''
I was hoping to do this code by SNPEFF_GENE_NAME for mum, dad and
child. The problem
correct code:
childseg-0
x:=sumchild -0
span-rle(x)$lengths[rle(x)$values==TRUE
childseg[x]-rep(seq_along(span), times = span)
childseg[childseg == 0]-''
On Thu, Jan 1, 2015 at 1:56 AM, Kate Ignatius kate.ignat...@gmail.com wrote:
Is it possible to add the following code or similar in
Estimados
Esto es segunda parte del mensaje anterior, aqui logro que salgan en el output
todos los gráficos pero no salen los resultados numericos
Saludos
Jose
cmd_sur.R
Description: Binary data
surF.R
Description: Binary data
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