Re: [R] SWEAVE - a gentle introduction

[Greg Snow]

John,

One additional point that I have not seen brought up yet.  If your
main goal is to have all the output from an existing R script put into
a single output file then you should look at the `stitch` function in
the knitr package.  This will take an existing R script and convert it
to one of the formats that knitr can process, then processes it for
you without you needing to modify the script or learn any of the
markdown (LaTeX or HTML or other).  You do not have a lot of control
over how the output looks, but it is quick and easy.

For the long run I would suggest learning to use the full power of
knitr, but stitch (and the related spin function which gives a few
more options) is a quick way to process an existing script.

On Tue, Nov 17, 2015 at 8:21 AM, John Sorkin
 wrote:
> I am looking for a gentle introduction to SWEAVE, and would appreciate 
> recommendations.
> I have an R program that I want to run and have the output and plots in one 
> document. I believe this can be accomplished with SWEAVE. Unfortunately I 
> don't know HTML, but am willing to learn. . . as I said I need a gentle 
> introduction to SWEAVE.
> Thank you,
> John
>
>
>
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and 
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and 
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
>
> Confidentiality Statement:
> This email message, including any attachments, is for ...{{dropped:18}}

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[John Maindonald]

What’s more, for pdf output one can use R Markdown and judiciously
sneak in html and/or LaTeX (consider however what the processing
steps might do to such markup).


John Maindonald email: 
john.maindon...@anu.edu.au<mailto:john.maindon...@anu.edu.au>


On 19/11/2015, at 00:00, 
r-help-requ...@r-project.org<mailto:r-help-requ...@r-project.org> wrote:

From: Duncan Murdoch <murdoch.dun...@gmail.com<mailto:murdoch.dun...@gmail.com>>
Subject: Re: [R] SWEAVE - a gentle introduction
Date: 18 November 2015 08:09:34 NZDT
To: Marc Schwartz <marc_schwa...@me.com<mailto:marc_schwa...@me.com>>, John 
Sorkin <jsor...@grecc.umaryland.edu<mailto:jsor...@grecc.umaryland.edu>>
Cc: R-help <r-help@r-project.org<mailto:r-help@r-project.org>>


On 17/11/2015 10:42 AM, Marc Schwartz wrote:

On Nov 17, 2015, at 9:21 AM, John Sorkin 
<jsor...@grecc.umaryland.edu<mailto:jsor...@grecc.umaryland.edu>> wrote:

I am looking for a gentle introduction to SWEAVE, and would appreciate 
recommendations.
I have an R program that I want to run and have the output and plots in one 
document. I believe this can be accomplished with SWEAVE. Unfortunately I don't 
know HTML, but am willing to learn. . . as I said I need a gentle introduction 
to SWEAVE.
Thank you,
John



John,

A couple of initial comments.

First, you will likely get some recommendations to also consider using Knitr:

  http://yihui.name/knitr/

which I do not use myself (I use Sweave), but to be fair, is worth considering 
as an alternative.

He did, and I'd agree with them.  I've switched to knitr for all new projects 
and some old ones.  knitr should be thought of as Sweave version 2.

Duncan Murdoch


[[alternative HTML version deleted]]

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[Therneau, Terry M., Ph.D.]

As a digest reader I am late to the discussion, but let me toss in 2 further 
notes.

1. Three advantages of knitr over Sweave
  a. The book "Dynamic documents with R and knitr".  It is well written; sitting down for 
an evening with the first half (70 pages) is a pretty good way to learn the package.  The 
second half covers features you may or may not use over time.  My only complaint about the 
book is that it needs a longer index; I have had several cases of "I know I read about 
xxx, but where was it?".  But this is ameliorated by


  b. Good online resources: manuals, tutorials, and question/answer pairs on 
various lists.

  c. Ongoing support. Sweave is static.

2. Latex vs markdown  (knitr supports both)
  One can choose "latex style" or "markdown style" for writing your documents.  I know 
latex very well (I wrote my book using it) but recommend markdown to all others in my 
department.  The latter is about 1/3 the learning curve.  Markdown produces very nice 
output, latex goes the extra mile to produce true book quality.  But one rarely needs that 
extra polish, and even more rarely needs it enough to justify the extra learning cost.  I 
still use the latex form myself as it is not at all difficult to use --- once you learn it.


Terry Therneau

On 11/18/2015 05:00 AM, r-help-requ...@r-project.org wrote:

I am looking for a gentle introduction to SWEAVE, and would appreciate 
recommendations.
I have an R program that I want to run and have the output and plots in one 
document. I believe this can be accomplished with SWEAVE. Unfortunately I don't 
know HTML, but am willing to learn. . . as I said I need a gentle introduction 
to SWEAVE.
Thank you,
John


__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[Thierry Onkelinx]

Given that you like a gentle introduction and don't know HTML, I would
recommend rmarkdown in combination with knitr. See
http://rmarkdown.rstudio.com/ for a lot of information.

I find knitr more flexible than sweave. Markdown syntax is much easier than
HTML or latex.

Best regards,

Thierry
Op 17-nov.-2015 16:25 schreef "John Sorkin" :

> I am looking for a gentle introduction to SWEAVE, and would appreciate
> recommendations.
> I have an R program that I want to run and have the output and plots in
> one document. I believe this can be accomplished with SWEAVE. Unfortunately
> I don't know HTML, but am willing to learn. . . as I said I need a gentle
> introduction to SWEAVE.
> Thank you,
> John
>
>
>
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
>
> Confidentiality Statement:
> This email message, including any attachments, is for ...{{dropped:16}}

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[Marc Schwartz]

> On Nov 17, 2015, at 9:21 AM, John Sorkin  wrote:
> 
> I am looking for a gentle introduction to SWEAVE, and would appreciate 
> recommendations. 
> I have an R program that I want to run and have the output and plots in one 
> document. I believe this can be accomplished with SWEAVE. Unfortunately I 
> don't know HTML, but am willing to learn. . . as I said I need a gentle 
> introduction to SWEAVE.
> Thank you,
> John
> 


John,

A couple of initial comments.

First, you will likely get some recommendations to also consider using Knitr:

  http://yihui.name/knitr/

which I do not use myself (I use Sweave), but to be fair, is worth considering 
as an alternative.

Second, to create stand alone documents, as opposed to web based content, you 
will likely want the output to be in TeX/LaTeX via Sweave, which can then 
become PDF based documents via the post processing of the TeX/LaTeX source. 
That is what I do for all of my analytic deliverables. You can also use LaTeX 
classes like 'Beamer' to create Powerpoint-like slides for presentation.

Fritz' web site for Sweave is here:

  http://www.statistik.lmu.de/~leisch/Sweave/

and there are some links to supporting materials there with very basic examples.

Another resource is:

  https://beckmw.files.wordpress.com/2014/02/sweave_intro1.pdf

and if you Google for Sweave Introductions and Tutorials, there are a myriad of 
others.

In conjunction with Sweave itself, there are a variety of supporting packages 
on CRAN that have related functionality (e.g. formatted LaTeX output) that are 
worth knowing about and are included in the Reproducible Research task view:

  https://cran.r-project.org/web/views/ReproducibleResearch.html

Regards,

Marc Schwartz

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[Ista Zahn]

I suggest using knitr instead of sweave. There are plenty of tutorials
online;
http://jeromyanglim.blogspot.co.nz/2012/05/getting-started-with-r-markdown-knitr.html?m=1
might be a good place to start. Links to a full length book and other
resources are available at
  http://yihui.name/knitr/

Best,
Ista
On Nov 17, 2015 10:23 AM, "John Sorkin"  wrote:

> I am looking for a gentle introduction to SWEAVE, and would appreciate
> recommendations.
> I have an R program that I want to run and have the output and plots in
> one document. I believe this can be accomplished with SWEAVE. Unfortunately
> I don't know HTML, but am willing to learn. . . as I said I need a gentle
> introduction to SWEAVE.
> Thank you,
> John
>
>
>
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
>
> Confidentiality Statement:
> This email message, including any attachments, is for ...{{dropped:16}}

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[John Sorkin]

I am looking for a gentle introduction to SWEAVE, and would appreciate 
recommendations. 
I have an R program that I want to run and have the output and plots in one 
document. I believe this can be accomplished with SWEAVE. Unfortunately I don't 
know HTML, but am willing to learn. . . as I said I need a gentle introduction 
to SWEAVE.
Thank you,
John



John David Sorkin M.D., Ph.D.
Professor of Medicine
Chief, Biostatistics and Informatics
University of Maryland School of Medicine Division of Gerontology and Geriatric 
Medicine
Baltimore VA Medical Center
10 North Greene Street
GRECC (BT/18/GR)
Baltimore, MD 21201-1524
(Phone) 410-605-7119
(Fax) 410-605-7913 (Please call phone number above prior to faxing) 
John David Sorkin M.D., Ph.D.
Professor of Medicine
Chief, Biostatistics and Informatics
University of Maryland School of Medicine Division of Gerontology and Geriatric 
Medicine
Baltimore VA Medical Center
10 North Greene Street
GRECC (BT/18/GR)
Baltimore, MD 21201-1524
(Phone) 410-605-7119
(Fax) 410-605-7913 (Please call phone number above prior to faxing) 

Confidentiality Statement:
This email message, including any attachments, is for the sole use of the 
intended recipient(s) and may contain confidential and privileged information. 
Any unauthorized use, disclosure or distribution is prohibited. If you are not 
the intended recipient, please contact the sender by reply email and destroy 
all copies of the original message. 
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[John Kane]

I've been very pleased using knitr in combination with LyX for pdf production.  

John Kane
Kingston ON Canada


> -Original Message-
> From: jsor...@grecc.umaryland.edu
> Sent: Tue, 17 Nov 2015 10:21:15 -0500
> To: r-help@r-project.org
> Subject: [R] SWEAVE - a gentle introduction
> 
> I am looking for a gentle introduction to SWEAVE, and would appreciate
> recommendations.
> I have an R program that I want to run and have the output and plots in
> one document. I believe this can be accomplished with SWEAVE.
> Unfortunately I don't know HTML, but am willing to learn. . . as I said I
> need a gentle introduction to SWEAVE.
> Thank you,
> John
> 
> 
> 
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics and Informatics
> University of Maryland School of Medicine Division of Gerontology and
> Geriatric Medicine
> Baltimore VA Medical Center
> 10 North Greene Street
> GRECC (BT/18/GR)
> Baltimore, MD 21201-1524
> (Phone) 410-605-7119
> (Fax) 410-605-7913 (Please call phone number above prior to faxing)
> 
> Confidentiality Statement:
> This email message, including any attachments, is for ...{{dropped:17}}

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[Henrik Bengtsson]

When choosing source format, it's probably helpful to know that if you
work with a Markdown-based format (e.g. Rmarkdown) you'll be able to
generate either/both HTML or/and PDF documents, whereas if you work
with LaTeX-based formats (e.g. Sweave/knitr) you will only be able
output PDF documents (at least without great efforts).

One major advantage with HTML documents/reports is that they aren't
constrained by page breaks, e.g. you don't have to worry about
generating long tables that run across two or more pages. With LaTeX
that is often a great pain.  These days even mathematical equations
renders quite well in HTML.  I tend to use HTML output for everyday
analysis reports and PDF occasionally for more final artifacts such as
supplementary notes where I want to have full control of layout,
equations, figure sizes and bibliographies.

If you plan to write package vignettes using one of the above formats,
choice of vignette format does not matter these days.  They're all
equally easy to use and incorporate in packages.

Cheers,

Henrik

On Tue, Nov 17, 2015 at 11:09 AM, Duncan Murdoch
 wrote:
> On 17/11/2015 10:42 AM, Marc Schwartz wrote:
>>
>>
>>> On Nov 17, 2015, at 9:21 AM, John Sorkin 
>>> wrote:
>>>
>>> I am looking for a gentle introduction to SWEAVE, and would appreciate
>>> recommendations.
>>> I have an R program that I want to run and have the output and plots in
>>> one document. I believe this can be accomplished with SWEAVE. Unfortunately
>>> I don't know HTML, but am willing to learn. . . as I said I need a gentle
>>> introduction to SWEAVE.
>>> Thank you,
>>> John
>>>
>>
>>
>> John,
>>
>> A couple of initial comments.
>>
>> First, you will likely get some recommendations to also consider using
>> Knitr:
>>
>>http://yihui.name/knitr/
>>
>> which I do not use myself (I use Sweave), but to be fair, is worth
>> considering as an alternative.
>
>
> He did, and I'd agree with them.  I've switched to knitr for all new
> projects and some old ones.  knitr should be thought of as Sweave version 2.
>
> Duncan Murdoch
>
>
>>
>> Second, to create stand alone documents, as opposed to web based content,
>> you will likely want the output to be in TeX/LaTeX via Sweave, which can
>> then become PDF based documents via the post processing of the TeX/LaTeX
>> source. That is what I do for all of my analytic deliverables. You can also
>> use LaTeX classes like 'Beamer' to create Powerpoint-like slides for
>> presentation.
>>
>> Fritz' web site for Sweave is here:
>>
>>http://www.statistik.lmu.de/~leisch/Sweave/
>>
>> and there are some links to supporting materials there with very basic
>> examples.
>>
>> Another resource is:
>>
>>https://beckmw.files.wordpress.com/2014/02/sweave_intro1.pdf
>>
>> and if you Google for Sweave Introductions and Tutorials, there are a
>> myriad of others.
>>
>> In conjunction with Sweave itself, there are a variety of supporting
>> packages on CRAN that have related functionality (e.g. formatted LaTeX
>> output) that are worth knowing about and are included in the Reproducible
>> Research task view:
>>
>>https://cran.r-project.org/web/views/ReproducibleResearch.html
>>
>> Regards,
>>
>> Marc Schwartz
>>
>> __
>> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> 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-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> 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-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[Duncan Murdoch]

On 17/11/2015 6:56 PM, Henrik Bengtsson wrote:

When choosing source format, it's probably helpful to know that if you
work with a Markdown-based format (e.g. Rmarkdown) you'll be able to
generate either/both HTML or/and PDF documents, whereas if you work
with LaTeX-based formats (e.g. Sweave/knitr) you will only be able
output PDF documents (at least without great efforts).

One major advantage with HTML documents/reports is that they aren't
constrained by page breaks, e.g. you don't have to worry about
generating long tables that run across two or more pages. With LaTeX
that is often a great pain.  These days even mathematical equations
renders quite well in HTML.  I tend to use HTML output for everyday
analysis reports and PDF occasionally for more final artifacts such as
supplementary notes where I want to have full control of layout,
equations, figure sizes and bibliographies.

If you plan to write package vignettes using one of the above formats,
choice of vignette format does not matter these days.  They're all
equally easy to use and incorporate in packages.


Yes, I agree with everything you say.  One additional thing:  I've been 
working on the rgl package lately (for movable 3D graphics); it is 
possible to embed those in a PDF document, but not portably (i.e. the 
PDF viewer will matter); it is much easier to embed rgl graphics in 
HTML.  So I tend to use Markdown input through knitr (which calls 
Rmarkdown).


Duncan Murdoch



Cheers,

Henrik

On Tue, Nov 17, 2015 at 11:09 AM, Duncan Murdoch
 wrote:

On 17/11/2015 10:42 AM, Marc Schwartz wrote:




On Nov 17, 2015, at 9:21 AM, John Sorkin 
wrote:

I am looking for a gentle introduction to SWEAVE, and would appreciate
recommendations.
I have an R program that I want to run and have the output and plots in
one document. I believe this can be accomplished with SWEAVE. Unfortunately
I don't know HTML, but am willing to learn. . . as I said I need a gentle
introduction to SWEAVE.
Thank you,
John




John,

A couple of initial comments.

First, you will likely get some recommendations to also consider using
Knitr:

http://yihui.name/knitr/

which I do not use myself (I use Sweave), but to be fair, is worth
considering as an alternative.



He did, and I'd agree with them.  I've switched to knitr for all new
projects and some old ones.  knitr should be thought of as Sweave version 2.

Duncan Murdoch




Second, to create stand alone documents, as opposed to web based content,
you will likely want the output to be in TeX/LaTeX via Sweave, which can
then become PDF based documents via the post processing of the TeX/LaTeX
source. That is what I do for all of my analytic deliverables. You can also
use LaTeX classes like 'Beamer' to create Powerpoint-like slides for
presentation.

Fritz' web site for Sweave is here:

http://www.statistik.lmu.de/~leisch/Sweave/

and there are some links to supporting materials there with very basic
examples.

Another resource is:

https://beckmw.files.wordpress.com/2014/02/sweave_intro1.pdf

and if you Google for Sweave Introductions and Tutorials, there are a
myriad of others.

In conjunction with Sweave itself, there are a variety of supporting
packages on CRAN that have related functionality (e.g. formatted LaTeX
output) that are worth knowing about and are included in the Reproducible
Research task view:

https://cran.r-project.org/web/views/ReproducibleResearch.html

Regards,

Marc Schwartz

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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] SWEAVE - a gentle introduction

[Duncan Murdoch]

On 17/11/2015 10:42 AM, Marc Schwartz wrote:



On Nov 17, 2015, at 9:21 AM, John Sorkin  wrote:

I am looking for a gentle introduction to SWEAVE, and would appreciate 
recommendations.
I have an R program that I want to run and have the output and plots in one 
document. I believe this can be accomplished with SWEAVE. Unfortunately I don't 
know HTML, but am willing to learn. . . as I said I need a gentle introduction 
to SWEAVE.
Thank you,
John




John,

A couple of initial comments.

First, you will likely get some recommendations to also consider using Knitr:

   http://yihui.name/knitr/

which I do not use myself (I use Sweave), but to be fair, is worth considering 
as an alternative.


He did, and I'd agree with them.  I've switched to knitr for all new 
projects and some old ones.  knitr should be thought of as Sweave 
version 2.


Duncan Murdoch



Second, to create stand alone documents, as opposed to web based content, you 
will likely want the output to be in TeX/LaTeX via Sweave, which can then 
become PDF based documents via the post processing of the TeX/LaTeX source. 
That is what I do for all of my analytic deliverables. You can also use LaTeX 
classes like 'Beamer' to create Powerpoint-like slides for presentation.

Fritz' web site for Sweave is here:

   http://www.statistik.lmu.de/~leisch/Sweave/

and there are some links to supporting materials there with very basic examples.

Another resource is:

   https://beckmw.files.wordpress.com/2014/02/sweave_intro1.pdf

and if you Google for Sweave Introductions and Tutorials, there are a myriad of 
others.

In conjunction with Sweave itself, there are a variety of supporting packages 
on CRAN that have related functionality (e.g. formatted LaTeX output) that are 
worth knowing about and are included in the Reproducible Research task view:

   https://cran.r-project.org/web/views/ReproducibleResearch.html

Regards,

Marc Schwartz

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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.