[R] kknn and logistic regression: how to cross-validate binary prediction
I am comparing kknn and logistic regression for binary outcome prediction - For kknn, I can do - kknn_<-kknn(out_come ~ age + gender , learn_, valid_) fit<-fitted(kknn_) table(valid_$out_come, fit) to get validation results in cross-tabulation. - For logistic, how can I do the equivalent cross-validation? logit_<-glm(out_come ~ age + gender, data=learn_, family=binomial) ... ... then how could I fit the logistic regression on validation data (ie. valid_) to get predicted outcome? Thanks! -- View this message in context: http://n4.nabble.com/kknn-and-logistic-regression-how-to-cross-validate-binary-prediction-tp1594107p1594107.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] binary response: from p_hat to 0, 1
I am using PROC LOGISTIC to model binary outcomes. I have observed Y (1 or 0) from original data. I also have got predicted probability for each observation (i.e. predicted probability of event Y=1) from PROC LOGISTIC. Let us call it - p_hat. for example, I would have two columns - Y p_hat 1 0.6 0 0.3 1 0.45 ... I would like to build a 2X2 classification table - Y =1, Y =0 vs. Y_hat=1, Y_hat =0 to evaluate my classification accuracy. The challenge is - how to derive Y_hat from p_hat? what threshold shall I use to say -- if p_hat > .. then Y_hat = 1 else Y_hat = 0 --- Besides, do I have to come up with thresholds/cutting points also for KNN, Neural Net, RandomForest and rpart prediction? Thanks. -- View this message in context: http://n4.nabble.com/binary-response-from-p-hat-to-0-1-tp1594105p1594105.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] estimate inverse gaussian in R
I have a one-variable data set in R. The plot of histogram of my numerical variable suggests an inverse gaussian distribution. How can I obtain best estimation for the two parameters of inverse gaussian based on my data? Thanks. -- View this message in context: http://n4.nabble.com/estimate-inverse-gaussian-in-R-tp949692p949692.html Sent from the R help mailing list archive at Nabble.com. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://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.
[R] How to dynamically display title for a graph
I have written a function (see below) which encloses a boxplot. My function
"xbox" takes in a variable name (such as "age"), and do a boxplot. Now I
would like to add a title for the graph dynamically displaying the variable
name as part of title.
But, in reality, the title displays VALUES of my variable.
Obviously, sprintf does not work.
Can somebody shed light on how to solve my problem in properly displaying a
title ?
Thanks.
-
xbox<- function(X)
{
boxplot(_expenses ~ X, data=my_tab,main=sprintf("title is %s",X))
}
xbox(age)
--
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http://n4.nabble.com/How-to-dynamically-display-title-for-a-graph-tp998365p998365.html
Sent from the R help mailing list archive at Nabble.com.
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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] How to generate PDF help file for our internal R package?
Currently, we have developed an R package for our company's internal use (at least for now). I have successfully built the package and generated zip file which can be easily installed. However, I am not sure how to generate the big HELP file in PDF. Right now, I have about 30+ Rd files for this internal package. I can run 'R CMD Rd2dvi' and WinEdt to create one pdf file individually for each Rd file. But I have not been successful in getting one big pdf file. Does anybody know how to generate a complete pdf file for the package ? Thanks! -- View this message in context: http://r.789695.n4.nabble.com/How-to-generate-PDF-help-file-for-our-internal-R-package-tp2292167p2292167.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] Linux 64-bit R installation problem - "Failed dependencies"
I am trying to install 64 bit R on Linux. But I got the following error - rpm -i R-core-2.10.0-2.fc11.x86_64.rpm warning: R-core-2.10.0-2.fc11.x86_64.rpm: Header V3 DSA signature: NOKEY, key ID 97d3544e error: Failed dependencies: /bin/bash is needed by R-core-2.10.0-2.fc11.x86_64 /bin/sh is needed by R-core-2.10.0-2.fc11.x86_64 /sbin/ldconfig is needed by R-core-2.10.0-2.fc11.x86_64 /usr/bin/perl is needed by R-core-2.10.0-2.fc11.x86_64 cups is needed by R-core-2.10.0-2.fc11.x86_64 gawk is needed by R-core-2.10.0-2.fc11.x86_64 ld-linux-x86-64.so.2()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 ld-linux-x86-64.so.2(GLIBC_2.2.5)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 less is needed by R-core-2.10.0-2.fc11.x86_64 libICE.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libSM.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libX11.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libXmu.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libXt.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libbz2.so.1()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libc.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libc.so.6(GLIBC_2.2.5)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libc.so.6(GLIBC_2.3)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libc.so.6(GLIBC_2.3.4)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libc.so.6(GLIBC_2.4)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libc.so.6(GLIBC_2.7)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libc.so.6(GLIBC_2.8)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libcairo.so.2()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libdl.so.2()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libdl.so.2(GLIBC_2.2.5)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libgcc_s.so.1()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libgfortran.so.3()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libgfortran.so.3(GFORTRAN_1.0)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libglib-2.0.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libgmodule-2.0.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libgobject-2.0.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libicui18n.so.40()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libicuuc.so.40()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libjpeg.so.62()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libm.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libm.so.6(GLIBC_2.2.5)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libpango-1.0.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libpangocairo-1.0.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libpcre.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libpng12.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libpng12.so.0(PNG12_0)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libreadline.so.5()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libstdc++.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libtcl8.5.so()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libtiff.so.3()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libtk8.5.so()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 libz.so.1()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 perl is needed by R-core-2.10.0-2.fc11.x86_64 perl(Carp) is needed by R-core-2.10.0-2.fc11.x86_64 perl(Cwd) is needed by R-core-2.10.0-2.fc11.x86_64 perl(Exporter) is needed by R-core-2.10.0-2.fc11.x86_64 perl(File::Basename) is needed by R-core-2.10.0-2.fc11.x86_64 perl(File::Compare) is needed by R-core-2.10.0-2.fc11.x86_64 perl(File::Copy) is needed by R-core-2.10.0-2.fc11.x86_64 perl(File::Copy::Recursive) is needed by R-core-2.10.0-2.fc11.x86_64 perl(File::Find) is needed by R-core-2.10.0-2.fc11.x86_64 perl(File::Path) is needed by R-core-2.10.0-2.fc11.x86_64 perl(File::Spec) is needed by R-core-2.10.0-2.fc11.x86_64 perl(FileHandle) is needed by R-core-2.10.0-2.fc11.x86_64 perl(Getopt::Long) is needed by R-core-2.10.0-2.fc11.x86_64 perl(IO::File) is needed by R-core-2.10.0-2.fc11.x86_64 perl(Text::Tabs) is needed by R-core-2.10.0-2.fc11.x86_64 perl(Text::Wrap) is needed by R-core-2.10.0-2.fc11.x86_64 perl(strict) is needed by R-core-2.10.0-2.fc11.x86_64 perl(vars) is needed by R-core-2.10.0-2.fc11.x86_64 perl(warnings) is needed by R-core-2.10.0-2.fc11.x86_64 rpmlib(FileDigests) <= 4.6.0-1 is needed by R-core-2.10.0-2.fc11.x86_64 rtld(GNU_HASH) is needed by R-core-2.10.0-2.fc11.x86_6
[R] R: rulefit error on Linux
R version 2.8.1 (2008-12-22) on Linux 64-bit I am trying to run 'rulefit' function (Rule based Learning Ensembles). but I got the following error - > rulefit(x,y) Warning: This program is an suid-root program or is being run by the root user. The full text of the error or warning message cannot be safely formatted in this environment. You may get a more descriptive message by running the program as a non-root user or by removing the suid bit on the executable. xterm Xt error: Can't open display: %s xterm: DISPLAY is not set Error in file(file, "r") : cannot open the connection In addition: Warning message: In file(file, "r") : cannot open file '/root/_rulefit/rfstatus': No such file or directory -- On windows R 2.10, I got this run successfully. So I am wondering whether it is due to my R older version on Linux. Thanks! -- View this message in context: http://r.789695.n4.nabble.com/R-rulefit-error-on-Linux-tp2966391p2966391.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
Re: [R] Linux 64-bit R installation problem - "Failed dependencies"
Hi. Marc, Thanks so much for your reply. Have a nice weekend! Tim -- Original Message -- From: "Marc Schwartz-3 [via R]" To: noclue_ Subject: Re: Linux 64-bit R installation problem - "Failed dependencies" Date: Thu, 7 Oct 2010 05:31:26 -0700 (PDT) On Oct 7, 2010, at 3:50 AM, noclue_ wrote: > > I am trying to install 64 bit R on Linux. But I got the following error - > > > rpm -i R-core-2.10.0-2.fc11.x86_64.rpm > > warning: R-core-2.10.0-2.fc11.x86_64.rpm: Header V3 DSA signature: NOKEY, > key ID 97d3544e > error: Failed dependencies: >/bin/bash is needed by R-core-2.10.0-2.fc11.x86_64 >/bin/sh is needed by R-core-2.10.0-2.fc11.x86_64 >/sbin/ldconfig is needed by R-core-2.10.0-2.fc11.x86_64 >/usr/bin/perl is needed by R-core-2.10.0-2.fc11.x86_64 >cups is needed by R-core-2.10.0-2.fc11.x86_64 >gawk is needed by R-core-2.10.0-2.fc11.x86_64 >ld-linux-x86-64.so.2()(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >ld-linux-x86-64.so.2(GLIBC_2.2.5)(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >less is needed by R-core-2.10.0-2.fc11.x86_64 >libICE.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libSM.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libX11.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libXmu.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libXt.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libbz2.so.1()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libc.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libc.so.6(GLIBC_2.2.5)(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libc.so.6(GLIBC_2.3)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libc.so.6(GLIBC_2.3.4)(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libc.so.6(GLIBC_2.4)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libc.so.6(GLIBC_2.7)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libc.so.6(GLIBC_2.8)(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libcairo.so.2()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libdl.so.2()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libdl.so.2(GLIBC_2.2.5)(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libgcc_s.so.1()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libgfortran.so.3()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libgfortran.so.3(GFORTRAN_1.0)(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libglib-2.0.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libgmodule-2.0.so.0()(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libgobject-2.0.so.0()(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libicui18n.so.40()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libicuuc.so.40()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libjpeg.so.62()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libm.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libm.so.6(GLIBC_2.2.5)(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libpango-1.0.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libpangocairo-1.0.so.0()(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libpcre.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libpng12.so.0()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libpng12.so.0(PNG12_0)(64bit) is needed by > R-core-2.10.0-2.fc11.x86_64 >libreadline.so.5()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libstdc++.so.6()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libtcl8.5.so()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libtiff.so.3()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libtk8.5.so()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >libz.so.1()(64bit) is needed by R-core-2.10.0-2.fc11.x86_64 >perl is needed by R-core-2.10.0-2.fc11.x86_64 >perl(Carp) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(Cwd) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(Exporter) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(File::Basename) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(File::Compare) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(File::Copy) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(File::Copy::Recursive) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(File::Find) is needed by R-core-2.10.0-2.fc11.x86_64 >perl(File::Path) is needed by R-core
[R] yum install - not working for installing R on Linux
I am trying to install R on Linux (Redhat 4). But 'yum' does not seem to work... thanks for your help/hints/suggestions in advance! $ sudo cat /proc/version Linux version 2.6.34.6-54.24.amzn1.i686 (mockbu...@build-31003.build) (gcc version 4.1.2 20080704 (Red Hat 4.1.2-48)) #1 SMP Fri Sep 17 23:13:59 UTC 2010 $ sudo yum install http://cran.cnr.berkeley.edu/bin/linux/redhat/el4/i386/R-core-2.10.0-2.el4.i386.rpm Loaded plugins: fastestmirror, security Loading mirror speeds from cached hostfile Setting up Install Process R-core-2.10.0-2.el4.i386.rpm | 23 MB 00:54 Examining /var/tmp/yum-root-3gwXzS/R-core-2.10.0-2.el4.i386.rpm: R-core-2.10.0-2.el4.i386 Marking /var/tmp/yum-root-3gwXzS/R-core-2.10.0-2.el4.i386.rpm to be installed Resolving Dependencies --> Running transaction check ---> Package R-core.i386 0:2.10.0-2.el4 set to be updated --> Processing Dependency: firefox for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: ggv for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libg2c.so.0 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libreadline.so.4 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtcl8.4.so for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtk8.4.so for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: perl(File::Copy::Recursive) for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: tetex-latex for package: R-core-2.10.0-2.el4.i386 --> Running transaction check ---> Package R-core.i386 0:2.10.0-2.el4 set to be updated --> Processing Dependency: firefox for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: ggv for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libg2c.so.0 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libreadline.so.4 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtcl8.4.so for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtk8.4.so for package: R-core-2.10.0-2.el4.i386 ---> Package perl-File-Copy-Recursive.noarch 0:0.38-4.4.amzn1 set to be updated ---> Package tetex-latex.i386 0:3.0-33.8.6.amzn1 set to be updated --> Processing Dependency: tetex-dvips = 3.0 for package: tetex-latex-3.0-33.8.6.amzn1.i386 --> Processing Dependency: tetex = 3.0 for package: tetex-latex-3.0-33.8.6.amzn1.i386 --> Processing Dependency: netpbm-progs for package: tetex-latex-3.0-33.8.6.amzn1.i386 --> Running transaction check ---> Package R-core.i386 0:2.10.0-2.el4 set to be updated --> Processing Dependency: firefox for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: ggv for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libg2c.so.0 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libreadline.so.4 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtcl8.4.so for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtk8.4.so for package: R-core-2.10.0-2.el4.i386 ---> Package netpbm-progs.i386 0:10.35.58-8.4.amzn1 set to be updated --> Processing Dependency: netpbm = 10.35.58-8.4.amzn1 for package: netpbm-progs-10.35.58-8.4.amzn1.i386 --> Processing Dependency: ghostscript for package: netpbm-progs-10.35.58-8.4.amzn1.i386 --> Processing Dependency: libnetpbm.so.10 for package: netpbm-progs-10.35.58-8.4.amzn1.i386 ---> Package tetex.i386 0:3.0-33.8.6.amzn1 set to be updated --> Processing Dependency: tetex-fonts = 3.0 for package: tetex-3.0-33.8.6.amzn1.i386 --> Processing Dependency: dialog for package: tetex-3.0-33.8.6.amzn1.i386 ---> Package tetex-dvips.i386 0:3.0-33.8.6.amzn1 set to be updated --> Processing Dependency: psutils for package: tetex-dvips-3.0-33.8.6.amzn1.i386 --> Running transaction check ---> Package R-core.i386 0:2.10.0-2.el4 set to be updated --> Processing Dependency: firefox for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: ggv for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libg2c.so.0 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libreadline.so.4 for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtcl8.4.so for package: R-core-2.10.0-2.el4.i386 --> Processing Dependency: libtk8.4.so for package: R-core-2.10.0-2.el4.i386 ---> Package dialog.i386 0:1.1-9.20080819.1.2.amzn1 set to be updated ---> Package ghostscript.i386 0:8.15.2-9.11.11.amzn1 set to be updated --> Processing Dependency: ghostscript-fonts for package: ghostscript-8.15.2-9.11.11.amzn1.i386 ---> Package netpbm.i386 0:10.35.58-8.4.amzn1 set to be updated ---> Package psutils.i386 0:1.17-34.2.amzn1 set to be updated ---> Package tetex-fonts.i386 0:3.0-33.8.6.amzn1 set to be updated --> Running transaction check ---> Package R-core.i386 0:2.10.0-2.el4 set to be updated --> Processing Dependency: firefox for package: R-core-2.10.0-2.el4.i386 --> Processing Dependen
[R] How to install R on Linux via source compilation?
How to install R on Linux via source compilation? Has anybody done it? I could not find step by step instructions online. I would appreciate if you could share your experience. Thanks. -- View this message in context: http://r.789695.n4.nabble.com/How-to-install-R-on-Linux-via-source-compilation-tp2999218p2999218.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
Re: [R] yum install - not working for installing R on Linux
Thanks. Marc! I tried using 'sudo yum install R' - but got the following error -- $ sudo yum install R Loaded plugins: fastestmirror, security Loading mirror speeds from cached hostfile Setting up Install Process No package R available. Error: Nothing to do - will look into epel... -- View this message in context: http://r.789695.n4.nabble.com/yum-install-not-working-for-installing-R-on-Linux-tp2998891p2999219.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] R installation failed on SUSE Linux -- libreadline.so.6 needed
I think that I have successfully installed libreadline.so.6. But still got an error -- libreadline.so.6 needed during R installation on SUSE Linux. help is really appreciated! === # ls -lt /usr/local/lib total 4088 -rw-r--r-- 1 root root 168858 Oct 18 07:15 libhistory.a lrwxrwxrwx 1 root root 15 Oct 18 07:15 libhistory.so -> libhistory.so.6 lrwxrwxrwx 1 root root 17 Oct 18 07:15 libhistory.so.6 -> libhistory.so.6.0 -r-xr-xr-x 1 root root 110410 Oct 18 07:15 libhistory.so.6.0 -rw-r--r-- 1 root root 1149336 Oct 18 07:15 libreadline.a lrwxrwxrwx 1 root root 16 Oct 18 07:15 libreadline.so -> libreadline.so.6 lrwxrwxrwx 1 root root 18 Oct 18 07:15 libreadline.so.6 -> libreadline.so.6 .0 -r-xr-xr-x 1 root root 674459 Oct 18 07:15 libreadline.so.6.0 -rw-r--r-- 1 root root 166578 Oct 18 06:43 libhistory.old lrwxrwxrwx 1 root root 17 Oct 18 06:43 libhistory.so.5 -> libhistory.so.5.2 -r-xr-xr-x 1 root root 109183 Oct 18 06:43 libhistory.so.5.2 -rw-r--r-- 1 root root 532 Oct 18 06:43 libreadline.old lrwxrwxrwx 1 root root 18 Oct 18 06:43 libreadline.so.5 -> libreadline.so.5 .2 -r-xr-xr-x 1 root root 650223 Oct 18 06:43 libreadline.so.5.2 # ls -lt /usr/local/lib64 total 1328 -r-xr-xr-x 1 root root 674459 Oct 18 07:19 libreadline.so.6 -r-xr-xr-x 1 root root 674459 Oct 18 07:19 libreadline.so.6.0 # ldd /usr/local/lib/libreadline.so linux-vdso.so.1 => (0x7fff74957000) libc.so.6 => /lib64/libc.so.6 (0x7f295027f000) /lib64/ld-linux-x86-64.so.2 (0x7f295082b000) # zypper install R-base Retrieving repository 'R10.1-base' metadata [error] Repository 'R10.1-base' is invalid. [|] Repository type can't be determined. Please check if the URIs defined for this repository are pointing to a valid rep ository. Warning: Disabling repository 'R10.1-base' because of the above error. Retrieving repository 'R12.2-base' metadata [error] Repository 'R12.2-base' is invalid. [|] Repository type can't be determined. Please check if the URIs defined for this repository are pointing to a valid rep ository. Warning: Disabling repository 'R12.2-base' because of the above error. Loading repository data... Reading installed packages... Resolving package dependencies... Problem: nothing provides libreadline.so.6 needed by R-patched-2.12.0-3.1.i586 Solution 1: do not ask to install a solvable providing R-base Solution 2: break R-patched by ignoring some of its dependencies Choose from above solutions by number or cancel [1/2/c] (c): -- View this message in context: http://r.789695.n4.nabble.com/R-installation-failed-on-SUSE-Linux-libreadline-so-6-needed-tp2999786p2999786.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] biglm: how it handles large data set?
I am trying to figure out why 'biglm' can handle large data set...
According to the R document - "biglm creates a linear model object that uses
only p^2 memory for p variables. It can be updated with more data using
update. This allows linear regression on data sets larger than memory."
After reading the source code below， I still could not figure out how
'update' implements the algorithm...
Thanks for any light shed upon this ...
> biglm::biglm
function (formula, data, weights = NULL, sandwich = FALSE)
{
tt <- terms(formula)
if (!is.null(weights)) {
if (!inherits(weights, "formula"))
stop("`weights' must be a formula")
w <- model.frame(weights, data)[[1]]
}
else w <- NULL
mf <- model.frame(tt, data)
mm <- model.matrix(tt, mf)
qr <- bigqr.init(NCOL(mm))
qr <- update(qr, mm, model.response(mf), w)
rval <- list(call = sys.call(), qr = qr, assign = attr(mm,
"assign"), terms = tt, n = NROW(mm), names = colnames(mm),
weights = weights)
if (sandwich) {
p <- ncol(mm)
n <- nrow(mm)
xyqr <- bigqr.init(p * (p + 1))
xx <- matrix(nrow = n, ncol = p * (p + 1))
xx[, 1:p] <- mm * model.response(mf)
for (i in 1:p) xx[, p * i + (1:p)] <- mm * mm[, i]
xyqr <- update(xyqr, xx, rep(0, n), w * w)
rval$sandwich <- list(xy = xyqr)
}
rval$df.resid <- rval$n - length(qr$D)
class(rval) <- "biglm"
rval
}
---
--
View this message in context:
http://r.789695.n4.nabble.com/biglm-how-it-handles-large-data-set-tp3020890p3020890.html
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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] SVD, UV-Decomposition and NMF
I am reading the Mining of Massive Datasets Book by Rajaraman and Ullman. It has a good explanation of Recommendation System at Chapter 9. But what are the relationship between 1) SVD (Singular Decomposition) 2) UV-Decomposition 3) NMF (Non-negative Matrix Factorization) In particular, it seems 2) and 3) can be very similar. Is it right? Thanks. -- View this message in context: http://r.789695.n4.nabble.com/SVD-UV-Decomposition-and-NMF-tp3208273p3208273.html Sent from the R help mailing list archive at Nabble.com. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://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.
[R] 64-bit R on 64-bit Windows box... Still not enough memory?!
I have a 64-bit windows box - Intel Xeon CPU E7340 @ 2.4GHz 31.9GB of RAM I have R 2.11.1 (64bit) running on it. My csv data is 3.6 GB (with about 15 million obs, 120 variables.) I have successfully imported the data above into R. No problem. Now I am trying to run 'rpart' on my data. But I got the following error : Error: cannot allocate vector of size 53.5 Mb In addition: Warning messages: 1: In lapply(x, "is.na") : Reached total allocation of 32764Mb: see help(memory.size) 2: In lapply(x, "is.na") : Reached total allocation of 32764Mb: see help(memory.size) 3: In lapply(x, "is.na") : Reached total allocation of 32764Mb: see help(memory.size) 4: In lapply(x, "is.na") : Reached total allocation of 32764Mb: see help(memory.size) > === Can anybody give me a hint on how to solve this? Thanks! = -- View this message in context: http://r.789695.n4.nabble.com/64-bit-R-on-64-bit-Windows-box-Still-not-enough-memory-tp2315742p2315742.html Sent from the R help mailing list archive at Nabble.com. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://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.
Re: [R] 64-bit R on 64-bit Windows box... Still not enough memory?!
> .Machine$sizeof.pointer [1] 4 -- View this message in context: http://r.789695.n4.nabble.com/64-bit-R-on-64-bit-Windows-box-Still-not-enough-memory-tp2315742p2316493.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] 64-bit R on 64-bit Windows box... Still not enough memory?!
sorry I opened a previous R version. Here is my 64-bit R session - > .Machine$sizeof.pointer [1] 8 -- View this message in context: http://r.789695.n4.nabble.com/64-bit-R-on-64-bit-Windows-box-Still-not-enough-memory-tp2315742p2316970.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] Looking for an image (R 64-bit on Linux 64-bit) on Amazon EC2
I have found an existing image on Amazon EC2 including R. But unfortunately, it is 32-bit R on 32-bit Linux. Does anybody know if there exists an mage (R 64-bit on Linux 64-bit) on Amazon EC2? Or how can I install 64-bit R on my own Linux instance there? Thanks. -- View this message in context: http://r.789695.n4.nabble.com/Looking-for-an-image-R-64-bit-on-Linux-64-bit-on-Amazon-EC2-tp2338938p2338938.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
Re: [R] Looking for an image (R 64-bit on Linux 64-bit) on Amazon EC2
>> You have a 64 bit Linux? If so... >>Dowload the sources Do you mean download Linux kernel source code and then compile it on Amazon EC2? -- View this message in context: http://r.789695.n4.nabble.com/Looking-for-an-image-R-64-bit-on-Linux-64-bit-on-Amazon-EC2-tp2338938p2339072.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
Re: [R] Looking for an image (R 64-bit on Linux 64-bit) on Amazon EC2
Thanks! But how could I find out their names on Amazon EC2? -- View this message in context: http://r.789695.n4.nabble.com/Looking-for-an-image-R-64-bit-on-Linux-64-bit-on-Amazon-EC2-tp2338938p2357731.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] Decision Tree in Python or C++?
Have anybody used Decision Tree in Python or C++? (or written their own decision tree implementation in Python or C++)? My goal is to run decision tree on 8 million obs as training set and score 7 million in test set. I am testing 'rpart' package on a 64-bit-Linux + 64-bit-R environment. But it seems that rpart is either not stable or running out of memory very quickly. (Is it because R is passing everything as copy instead of as object reference?) Any idea would be greatly appreciated! Have a nice weekend! -- View this message in context: http://r.789695.n4.nabble.com/Decision-Tree-in-Python-or-C-tp2526810p2526810.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
[R] R: Collaborative Filtering
Is Collaborative Filtering available in R? It seems I could not find any R package implementing Collaborative Filtering? Thanks! -- View this message in context: http://r.789695.n4.nabble.com/R-Collaborative-Filtering-tp2249934p2249934.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://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.
