No, this is part of my dataset. Anyway, this is unlikely to cause the
problem. If there are few data, impute.knn actually uses mean imputation
(and returns a warning).
----- Original Message -----
From: "Martin Morgan" <mtmor...@fhcrc.org>
To: "Vassilis Golfinopoulos" <vassilis.golfinopou...@gmail.com>
Cc: "Greg Snow" <greg.s...@imail.org>; <r-help@r-project.org>; "premmad"
<mtechp...@gmail.com>
Sent: Monday, September 21, 2009 7:20 PM
Subject: Re: [R] Handling missing data
Vassilis Golfinopoulos wrote:
Consider this sample dataset (displayed [1:3, 1:3]):
T1053B T1102A T1129A
AKT1 -0.02412174 0.1986057 NA
AURKA -0.37109748 -0.4418542 0.04967051
BRAF -0.14589269 -0.1590310 -0.35483226
is.na(dataset[1, 3])
TRUE
library(impute)
library(GeneMeta)
imputed.dataset <- impute.knn(as.matrix(dataset))
impute.knn has a second parameter k with default value 10, the number of
nearest neighbors to use, in gene space, for imputation. For the example
above, there are not 10 nearest neighbors, and unfortunately impute.knn
does not check for this. Is this the case with your real data?
This might address your problem with impute.knn, a GeneMeta example
would help for progress on that front.
Martin
CRASH!
2009/9/21 Greg Snow <greg.s...@imail.org>:
Help us to help you, show us the code that you tried, what you expected,
and what you saw.
Does "using NA condition" mean:
x == NA
Which does not work
Or
is.na(x)
Which should.
-----Original Message-----
From: "premmad" <mtechp...@gmail.com>
To: "r-help@r-project.org" <r-help@r-project.org>
Sent: 9/21/09 12:38 AM
Subject: [R] Handling missing data
I have to remove missing data both in character and numeric datatype.I
tried
using NA condition but it is not working ,please help me to solve this.
--
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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.
______________________________________________
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.
