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Dan Davison 2009-02-05 21:15:09 -05:00
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@ -1,10 +1,7 @@
#+TITLE: rorg --- R and org-mode
Please feel free to change the layout of this file, I'm just putting
this here to get things started.
* Objectives
** Import data into R from org
** Send data to R from org
Org-mode includes orgtbl-mode, an extremely convenient way of using
tabular data in a plain text file. Currently, spreadsheet
functionality is available in org tables using the emacs package
@ -17,15 +14,43 @@ this here to get things started.
*** Implementations
**** naive
Naive implementation would be to use =(org-export-table "tmp.csv")=
and =(ess-exec "read.csv('tmp.csv')")=.
and =(ess-execute "read.csv('tmp.csv')")=.
**** org-R
[[file:existing_tools/org-R.el::defun%20org%20R%20export%20to%20csv%20csv%20file%20options][org-R-export-to-csv]]
org-R passes data to R from two sources: org tables, or csv
files. Org tables are first exported to a temporary csv file
using [[file:existing_tools/org-R.el::defun%20org%20R%20export%20to%20csv%20csv%20file%20options][org-R-export-to-csv]].
**** org-exp-blocks
**** RweaveOrg
NA
** evaluate R code and make the output available for processing in an org buffer
** evaluate R code and format the output for export
** evaluate R code from org and deal with output appropriately
*** vector output
When R code evaluation generates vectors and 2-dimensional arrays,
this should be formatted appropriately in org buffers (orgtbl-mode) as well
as in export targets (html, latex)
**** Implementations
***** org-R
org-R converts R output (vectors, or matrices / 2d-arrays) to an
org table and stores it in the org buffer, or in a separate org
file (csv output would also be perfectly possible).
***** org-exp-blocks
***** RweaveOrg
*** graphical output
R can generate graphical output on a screen graphics device
(e.g. X11, quartz), and in various standard image file formats
(png, jpg, ps, pdf, etc). When graphical output is generated by
evaluation of R code in Org, at least the following two things are desirable:
1. output to screen for immediate viewing is possible
2. graphical output to file is linked to appropriately from the
org file This should have the automatic consequence that it is
included appropriately in subsequent export targets (html,
latex).
**** Implementations
***** org-R
org-R does (1) if no output file is specified and (2) otherwise
***** org-exp-blocks
***** RweaveOrg
* Notes
** Special editing and evaluation of source code in R blocks
@ -33,7 +58,7 @@ this here to get things started.
In developing RweaveOrg, a third was introduced.
Eric is leaning towards using the =#+begin_src= blocks, as that is
really what these blocks contain is source code. Austin believes
really what these blocks contain: source code. Austin believes
that specifying export options at the beginning of a block is
useful functionality, to be preserved if possible.