[R] installing sn package

[Uwe Ligges]

Roslina Zakaria wrote:
> Hi r-users,
> 
> I want to use the sn package but I got the following message:
> 
>> install.packages(repos=NULL,pkgs="c:\\Tinn-R\\sn_0.4-12.zip")
> Warning: package 'sn' is in use and will not be installed
> updating HTML package descriptions
> 
> I did tried to do it a few times but it gives the same message. 

Well sn is loaded. Try to start R without loading "sn" at startup and 
install again.

Uwe Ligges


> 
> 
> 
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> Today's Topics:
> 
>   1. Intra-observer reliability (Shreyasee)
>   2. Re: Constrained fits: y~a+b*x-c*x^2, with a,b,c >=0
>       (Berwin A Turlach)
>   3.  Multiple ANOVA tests (Imri)
>   4..  r-plot (durden10)
>   5.  Multivariate Transformations (Hollix)
>   6. Re: Neural Network resource (Tony Breyal)
>   7. How to write a loop? (Maithili Shiva)
>   8. How to exclude a column by name? (Zeljko Vrba)
>   9. Re: How to write a loop? (Linlin Yan)
>   10. Re: How to exclude a column by name? (Linlin Yan)
>   11. Re: How to exclude a column by name? (Paul Hiemstra)
>   12. Re: How to exclude a column by name? (Zeljko Vrba)
>   13. Re: How to exclude a column by name? (Peter Dalgaard)
>   14. Re: Multiple ANOVA tests (Mike Lawrence)
>   15. Re: r-plot (Gavin Simpson)
>   16. Re: Intra-observer reliability (Gavin Simpson)
>   17. Re: Intra-observer reliability (Jim Lemon)
>   18. file.move? (Stefan Uhmann)
>   19. Re: Intra-observer reliability (Shreyasee)
>   20. Re: Intra-observer reliability (Shreyasee)
>   21. Re: Constrained fits: y~a+b*x-c*x^2, with a,b,c >=0 (Liaw, Andy)
>   22. Re: How to exclude a column by name? (Henrique Dallazuanna)
>   23. Re: r-plot (Richard.Cotton at hsl.gov.uk)
>   24. Re: Harmonic Analysis (Uwe Ligges)
>   25. Problem with adding labels in ggplot2 (Zeljko Vrba)
>   26. Full likelihood from survreg (Ullrika Sahlin)
>   27. Re: Multiple ANOVA tests (Imri)
>   28. Re: Problem with adding labels in ggplot2 (Zeljko Vrba)
>   29. Re: split strings (Monica Pisica)
>   30. Re: Multivariate Transformations (stephen sefick)
>   31. Sort matrix by column 1 ascending then by column 2 decending
>       (Paul Geeleher)
>   32. Re: moving from Windows to Linux - need help (Millo Giovanni)
>   33. Warning message as a result of logistic regression performed
>       (Winter, Katherine)
>   34. Re: C4.5 implementation in R (Lazy Tiger)
>   35. Re: Multiple ANOVA tests (Mike Lawrence)
>   36. Re: r-plot (Jim Lemon)
>   37. Re: Harmonic Analysis (stephen sefick)
>   38. Re: Sort matrix by column 1 ascending then by column 2
>       decending (Henrique Dallazuanna)
>   39. Hierarchical glm with binomial family (Johan Stenberg)
>   40. Re: optim() question (John C Nash)
>   41. Re: Harmonic Analysis (Gerard M. Keogh)
>   42. Re: How to write a loop? (Andrew Dolman)
>   43. Re: file.move? (Prof Brian Ripley)
>   44. Re: Sort matrix by column 1 ascending then by column 2
>       decending (Paul Geeleher)
>   45. Defining functions - an interesting problem (utkarshsinghal)
>   46. Re: Hierarchical glm with binomial family (Ben Bolker)
>   47. Re: Warning message as a result of logistic regression
>       performed (Gavin Simpson)
>   48. Re: Multivariate Transformations (Gavin Simpson)
>   49. Re: How to exclude a column by name? (Stavros Macrakis)
>   50. Re: Neural Network resource (Indrajit Sengupta)
>   51. Re: Defining functions - an interesting problem (Thomas Lumley)
>   52. Re: Defining functions - an interesting problem (Gavin Simpson)
>   53. Re: Defining functions - an interesting problem (utkarshsinghal)
>   54. R in Ubunto (R Heberto Ghezzo, Dr)
>   55. vegan metaMDS question (stephen sefick)
>   56. Re: Neural Network resource (Max Kuhn)
>   57. Re: How to exclude a column by name? (Dieter Menne)
>   58. Re: R in Ubunto (stephen sefick)
>   59. Re: Defining functions - an interesting problem (Stavros Macrakis)
>   60. Re: R in Ubunto (Jeff Newmiller)
>   61. Object-oriented programming in R (Luc Villandre)
>   62. Changing point color/character in qqmath (Kevin W)
>   63. Re: Hierarchical glm with binomial family (Douglas Bates)
>   64. Re: Sort matrix by column 1 ascending then by column 2
>       decending (Linlin Yan)
>   65. Deviance explined in GAMM, library mgcv (Berta Ib??ez)
>   66. How to set a filter during reading tables (guox at ucalgary.ca)
>   67. Re: How to exclude a column by name? (Wacek Kusnierczyk)
>   68. Labeling barplot bars by multiple factors (Thomas Levine)
>   69. Re: vegan metaMDS question (Gavin Simpson)
>   70. Re: Sort matrix by column 1 ascending then by column 2
>       decending (Kevin W)
>   71. Re: R in Ubunto (Jarek Jasiewicz)
>   72. Re: Sort matrix by column 1 ascending then by column 2
>       decending (Duncan Murdoch)
>   73. Re: Labeling barplot bars by multiple factors (Mike Lawrence)
>   74. alternative to built-in data editor (Jose Quesada)
>   75. no internal function "int.unzip" in R 2.9.0 for Windows
>       (Carson, John)
>   76. "Error: package/namespace load failed" (Rebecca Sela)
>   77. contour lines on persp plot (Jack Siegrist)
>   78. Re: Neural Network resource (Indrajit Sengupta)
>   79. Re: alternative to built-in data editor (Peter Dalgaard)
>   80.  r-plot 2nd attempt (durden10)
>   81. R-beta: Re:Stats Seminar 18/02/98 (Roland Chariatte)
>   82.  problem with cbind (kayj)
>   83. interpretation of the likelihood ratio test under *R* GLM
>       (Michael Menke)
>   84. how do I get to be a member? (Michael Menke)
>   85. RWeka  weka.core.SerializationHelper.write (Christian)
>   86. RWeka  weka.core.SerializationHelper.write (Christian)
>   87. Re: Loop avoidance and logical subscripts (retama)
>   88. Re: Neural Network resource (Tony Breyal)
>   89. invert axis persp plot (Jack Siegrist)
>   90. a simple trick to get autoclose parenthesis on windows
>       (Jose Quesada)
>   91. Re: no internal function "int.unzip" in R 2.9.0 for Windows
>       (Romain Francois)
>   92. reduce size of plot inside window and place legend beside
>       plot (Wade Wall)
>   93. ggplot2 adding vertical line at a certain date (stephen sefick)
>   94. Re: reduce size of plot inside window and place legend beside
>       plot (baptiste auguie)
>   95. Factor level with no cases shows up in a plot (Arthur Burke)
>   96. R Books listing on R-Project (Stavros Macrakis)
>   97. Re: Factor level with no cases shows up in a plot
>       (krzysztof.sakrejda at gmail.com)
>   98. Re: Still can't find missing data (Farley, Robert)
>   99. Re: "Error: package/namespace load failed" (Martin Morgan)
>   100. Re: alternative to built-in data editor (Greg Snow)
>   101. Re: R Books listing on R-Project (G. Jay Kerns)
>   102. Axis label spanning multiple plots (Andre Nathan)
>   103. Re: how do I get to be a member? ( (Ted Harding))
>   104. Re: r-plot 2nd attempt (Gavin Simpson)
>   105. Re: Axis label spanning multiple plots (Greg Snow)
>   106. Re: how do I get to be a member? (Gavin Simpson)
>   107. Re: Factor level with no cases shows up in a plot (Stefan Grosse)
>   108. R:  Harmonic Analysis (mauede at alice.it)
>   109. Re: Changing point color/character in qqmath (Kevin W)
>   110. Re: Linear Regression with Constraints (Emmanuel Charpentier)
>   111. boxplot (amorigandhi at yahoo.de)
>   112. Re: R:  Harmonic Analysis (stephen sefick)
>   113. Re: boxplot (stephen sefick)
>   114. lattice::xyplot axis padding with fontfamily="mono"
>       (Benjamin Tyner)
>   115. How do I get removed from this mailing list? (Andrey Lyalko)
>   116. Re: RGoogleDocs: can now see documents but cannot get
>       content. (Farrel Buchinsky)
>   117. Re: How do I get removed from this mailing list? (Duncan Murdoch)
>   118. Replace is leaking? (Zhou Fang)
>   119.  question about using a remote system (Erin Hodgess)
>   120. Re: Replace is leaking? (Zhou Fang)
>   121. Re: Replace is leaking? (Rolf Turner)
>   122. Re: problem with cbind (jim holtman)
>   123. Re: problem with cbind (Gabor Grothendieck)
>   124. Re: R Books listing on R-Project (Ben Bolker)
>   125. R help (mohsin ali)
>   126. R: R:  Harmonic Analysis (mauede at alice.it)
>   127. Interaction plots as lines or bars? (Michael Kubovy)
>   128. PBSmapping problems with importGSHHS (Tim Clark)
>   129. Re: R Books listing on R-Project (G. Jay Kerns)
>   130. Unable to load R (anupam sinha)
>   131. Re: Unable to load R (Zeljko Vrba)
>   132. Re: Interaction plots as lines or bars? (Dieter Menne)
>   133. Re: question about using a remote system ( (Ted Harding))
>   134. Re: alternative to built-in data editor (Dieter Menne)
>   135. Re: question about using a remote system (Mark Wardle)
>   136. Re: How do I get removed from this mailing list? (Peter Dalgaard)
>   137. "1L" and "0L" (bogaso.christofer)
>   138. Re: Object-oriented programming in R (Mark Wardle)
>   139. Re: How do I get removed from this mailing list? (Peter Dalgaard)
>   140. Re: How do I get removed from this mailing list?
>       (Wacek Kusnierczyk)
>   141. Re: ggplot2 adding vertical line at a certain date (Ivan Alves)
>   142. optima in unimode (ms.com)
>   143. Re: "1L" and "0L" (Gavin Simpson)
>   144. Re: How do I get removed from this mailing list? (Gavin Simpson)
>   145. Re: optima in unimode (Gavin Simpson)
>   146. Re: Unable to load R (anupam sinha)
>   147. Re: Unable to load R (Zeljko Vrba)
>   148. Re: R help (Richard.Cotton at hsl.gov.uk)
>   149. Delta Kronecker (FMH)
> 
> 
> ----------------------------------------------------------------------
> 
> Message: 1
> Date: Wed, 27 May 2009 18:08:07 +0800
> From: Shreyasee <shreyasee.pradhan at gmail.com>
> Subject: [R] Intra-observer reliability
> To: r-help at r-project.org
> Message-ID:
>     <dd01e5960905270308j7b58a459ua6187eca6f0ba921 at mail.gmail.com>
> Content-Type: text/plain
> 
> Hi,
> 
> I searched a lot on the internet but was unable to find the function for
> calculating the kappa statistics for intra-observer reliabilty.
> Can anybody help me in the this regards.
> 
> Thanks,
> Shreyasee
> 
>     [[alternative HTML version deleted]]
> 
> 
> 
> ------------------------------
> 
> Message: 2
> Date: Wed, 27 May 2009 18:09:27 +0800
> From: Berwin A Turlach <berwin at maths.uwa.edu.au>
> Subject: Re: [R] Constrained fits: y~a+b*x-c*x^2, with a,b,c >=0
> To: amvds at xs4all.nl
> Cc: r-help at r-project.org
> Message-ID: <20090527180927.1814b009 at berwin-nus1>
> Content-Type: text/plain; charset=US-ASCII
> 
> G'day Alex,
> 
> On Wed, 27 May 2009 11:51:39 +0200
> Alex van der Spek <amvds at xs4all.nl> wrote:
> 
>> I wonder whether R has methods for constrained fitting of linear
>> models.
>>
>> I am trying fm<-lm(y~x+I(x^2), data=dat) which most of the time gives
>> indeed the coefficients of an inverted parabola. I know in advance
>> that it has to be an inverted parabola with the maximum constrained to
>> positive (or zero) values of x.
>>
>> The help pages for lm do not contain any info on constrained fitting.
>>
>> Does anyone know how to?
> 
> Look at the package nnls on CRAN.
> 
> According to your subject line, you are trying to solve what is known
> as a quadratic program, and there are at least two quadratic
> programming solvers (ipop in kernlab and solve.qp in quadprog)
> available for R.
> 
> HTH.
> 
> Cheers,
> 
>     Berwin
> 
> =========================== Full address =============================
> Berwin A Turlach                            Tel.: +65 6516 4416 (secr)
> Dept of Statistics and Applied Probability        +65 6516 6650 (self)
> Faculty of Science                          FAX : +65 6872 3919      
> National University of Singapore    
> 6 Science Drive 2, Blk S16, Level 7          e-mail: statba at nus.edu.sg
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> 
> 
> 
> ------------------------------
> 
> Message: 3
> Date: Wed, 27 May 2009 03:11:08 -0700 (PDT)
> From: Imri <bisrael at agri.huji.ac.il>
> Subject: [R]  Multiple ANOVA tests
> To: r-help at r-project.org
> Message-ID: <23739615.post at talk.nabble.com>
> Content-Type: text/plain; charset=UTF-8
> 
> 
> Hi all -
> I'm trying to do multiple one-way ANOVA tests of different factors on the
> same variable. As a result I have a list with all the ANOVA tables, for
> exemple:
> 
> $X11_20502
> Analysis of Variance Table
> 
> Response: MPH
>           Df  Sum Sq Mean Sq F value    Pr(>F)    
> x          3  369.9  123.3  6.475 0.0002547 ***
> Residuals 635 12093.2    19.0                      
> ---
> Signif. codes:  0 ?***? 0.001 ?**? 0..01 ?*? 0.05 ?.? 0.1 ? ? 1 
> 
> $X11_21067
> Analysis of Variance Table
> 
> Response: MPH
>           Df  Sum Sq Mean Sq F value Pr(>F)
> x          1    26.7    26.7  1.3662 0.2429
> Residuals 637 12436.4    19.5              
> 
> $X11_10419
> Analysis of Variance Table
> 
> Response: MPH
>           Df  Sum Sq Mean Sq F value    Pr(>F)    
> x          3  527.8  175.9  9.361 4.621e-06 ***
> Residuals 635 11935.3    18.8                      
> ---
> Signif. codes:  0 ?***? 0.001 ?**? 0.01 ?*? 0.05 ?.? 0.1 ? ? 1 
> 
> My question is how can I extract from this list, just the Pr(>F) values for
> each x ?      
> 
> 
> ------------------------------------------------------------------------
> 
> This body part will be downloaded on demand.