Re: [Orgmode] org tables and R
Hi everyone, should we include Dan's code as a contributed package or even merge it into org-plot? - Carsten On Dec 30, 2008, at 8:35 PM, Dan Davison wrote: Hi all, I've had a go at taking the org tables and R thing a bit further. I'm using two different #+ lines in the org buffer: Lines starting with #+TBLR: are in the standard org style (option:value) and can be used to specify certain transformations of the table and standard plots of the table data. In lines starting #+TBLR:: you can supply literal R code, giving you full control over what you do with the table. M-x org-table-R-apply makes happen whatever has been specified in those lines. As long as the transformation results in something reasonably one- or two-dimensional, then this is output to the org-buffer as an org table (you can choose whether or not it replaces the original table). You need to have R running in an inferior-ess-mode buffer. Then, if you have this table, | rowname | col1 | col2 | |-+--+--| | row 1 |1 |2 | | row 2 |3 |4 | | total | | | #+TBLR:: x[3,] - x[1,] + x[2,] #+TBLR: rownames:1 org-table-R-apply turns it into | rownames(x) | col1 | col2 | |-+--+--| | row 1 |1 |2 | | row 2 |3 |4 | | total |4 |6 | The action:something option specifies off-the-shelf actions, without having to write any R code. E.g. | col1 | col2 | |--+--| |1 |2 | |3 |4 | #+TBLR: action:transpose produces | | V1 | V2 | |--++| | col1 | 1 | 3 | | col2 | 2 | 4 | and #+TBLR: action:plot columns:((1)(2)) lines:t rownames:1 would plot column 2 against column 1. You can mix user-code and off-the-shelf code: in this somewhat solipsistic example user-supplied code is used to extract the day of week, and then action:tabulate is used to build a 2-way table: | author | date| |-+-| | Carsten Dominik | Thu, 12 Jun 2008 12:51:54 +0200 | | Carsten Dominik | Wed, 11 Jun 2008 08:57:39 +0200 | | Adam Spiers | Wed, 11 Jun 2008 12:06:23 +0100 | | Eddward DeVilla | Wed, 11 Jun 2008 12:15:11 -0500 | | Eddward DeVilla | Wed, 11 Jun 2008 20:09:50 -0500 | | Harri Kiiskinen | Wed, 04 Jun 2008 16:38:37 +0200 | | Carsten Dominik | Thu, 12 Jun 2008 14:15:49 +0200 | | Harri Kiiskinen | Thu, 12 Jun 2008 14:31:49 +0200 | | Carsten Dominik | Thu, 12 Jun 2008 16:17:59 +0200 | | Manoj Srivastava| Mon, 09 Jun 2008 01:52:03 -0500 | | Daniel Clemente | Wed, 04 Jun 2008 16:35:01 +0200 | | Carsten Dominik | Mon, 9 Jun 2008 09:56:09 +0200 | | Carsten Dominik | Tue, 10 Jun 2008 10:05:24 +0200 | | Adam Spiers | Tue, 10 Jun 2008 10:57:52 +0100 | | Manuel Hermenegildo | Tue, 10 Jun 2008 13:50:44 +0200 | | Christian Egli | Tue, 24 Jun 2008 13:27:05 +0200 | #+TBLR: columns:(1 2) action:tabulate #+TBLR:: x[,2] - substr(x[,2], 1, 3) results in | | Mon | Thu | Tue | Wed | |-+-+-+-+-| | Adam Spiers | 0 | 0 | 1 | 1 | | Carsten Dominik | 1 | 3 | 1 | 1 | | Christian Egli | 0 | 0 | 1 | 0 | | Daniel Clemente | 0 | 0 | 0 | 1 | | Eddward DeVilla | 0 | 0 | 0 | 2 | | Harri Kiiskinen | 0 | 1 | 0 | 1 | | Manoj Srivastava| 1 | 0 | 0 | 0 | | Manuel Hermenegildo | 0 | 0 | 1 | 0 | #+TBLR: action:barplot rownames:1 columns:(1 2 3 4) showcode:t The #+TBLR: line below that produces a bar plot of the data. There are more details below. The code is at http://www.stats.ox.ac.uk/~davison/software/org-table-R/org-table-R.el It would be great to get any feedback on this. My thought was that something like this has the potential to provide a unified plotting and table formula interface, which might be attractive to people who know and/or like and/or want to learn R. There's lots more that could be done with this, and there must be all sorts of bugs in it at this stage. But if there's any interest in it then it could be improved. Anyway, read on if you're interested in hearing more details about the options and actions available. Dan Currently, the available actions are - plot A simple plot of the x and y values. If no x-values are specified then the the y values are plotted against 1,2,...,length(y). If lines:t then the points are joined by lines. - lines Equivalent to action:plot lines:t - points Equivalent to action:plot lines:nil - barplot Create a bar plot. A vertical bar is drawn for each row, with height given by the value in that row. If multiple columns are selected the bars for different columns are placed side-by-side. - hist A histogram - density A smoothed histogram - image A plot of a table in which each cell is coloured according its numeric value. - tabulate Create a table containing counts of the
Re: [Orgmode] org tables and R
Carsten should we include Dan's code as a contributed package or even merge it into org-plot? I would like to see it included some how, as, for me, the more integration between org-mode and R the better. As to how it should be included, I must leave to other who more about Org-mode, Emacs, ESS and R than I do. Graham ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
[Orgmode] org tables and R
Hi all, I've had a go at taking the org tables and R thing a bit further. I'm using two different #+ lines in the org buffer: Lines starting with #+TBLR: are in the standard org style (option:value) and can be used to specify certain transformations of the table and standard plots of the table data. In lines starting #+TBLR:: you can supply literal R code, giving you full control over what you do with the table. M-x org-table-R-apply makes happen whatever has been specified in those lines. As long as the transformation results in something reasonably one- or two-dimensional, then this is output to the org-buffer as an org table (you can choose whether or not it replaces the original table). You need to have R running in an inferior-ess-mode buffer. Then, if you have this table, | rowname | col1 | col2 | |-+--+--| | row 1 |1 |2 | | row 2 |3 |4 | | total | | | #+TBLR:: x[3,] - x[1,] + x[2,] #+TBLR: rownames:1 org-table-R-apply turns it into | rownames(x) | col1 | col2 | |-+--+--| | row 1 |1 |2 | | row 2 |3 |4 | | total |4 |6 | The action:something option specifies off-the-shelf actions, without having to write any R code. E.g. | col1 | col2 | |--+--| |1 |2 | |3 |4 | #+TBLR: action:transpose produces | | V1 | V2 | |--++| | col1 | 1 | 3 | | col2 | 2 | 4 | and #+TBLR: action:plot columns:((1)(2)) lines:t rownames:1 would plot column 2 against column 1. You can mix user-code and off-the-shelf code: in this somewhat solipsistic example user-supplied code is used to extract the day of week, and then action:tabulate is used to build a 2-way table: | author | date| |-+-| | Carsten Dominik | Thu, 12 Jun 2008 12:51:54 +0200 | | Carsten Dominik | Wed, 11 Jun 2008 08:57:39 +0200 | | Adam Spiers | Wed, 11 Jun 2008 12:06:23 +0100 | | Eddward DeVilla | Wed, 11 Jun 2008 12:15:11 -0500 | | Eddward DeVilla | Wed, 11 Jun 2008 20:09:50 -0500 | | Harri Kiiskinen | Wed, 04 Jun 2008 16:38:37 +0200 | | Carsten Dominik | Thu, 12 Jun 2008 14:15:49 +0200 | | Harri Kiiskinen | Thu, 12 Jun 2008 14:31:49 +0200 | | Carsten Dominik | Thu, 12 Jun 2008 16:17:59 +0200 | | Manoj Srivastava| Mon, 09 Jun 2008 01:52:03 -0500 | | Daniel Clemente | Wed, 04 Jun 2008 16:35:01 +0200 | | Carsten Dominik | Mon, 9 Jun 2008 09:56:09 +0200 | | Carsten Dominik | Tue, 10 Jun 2008 10:05:24 +0200 | | Adam Spiers | Tue, 10 Jun 2008 10:57:52 +0100 | | Manuel Hermenegildo | Tue, 10 Jun 2008 13:50:44 +0200 | | Christian Egli | Tue, 24 Jun 2008 13:27:05 +0200 | #+TBLR: columns:(1 2) action:tabulate #+TBLR:: x[,2] - substr(x[,2], 1, 3) results in | | Mon | Thu | Tue | Wed | |-+-+-+-+-| | Adam Spiers | 0 | 0 | 1 | 1 | | Carsten Dominik | 1 | 3 | 1 | 1 | | Christian Egli | 0 | 0 | 1 | 0 | | Daniel Clemente | 0 | 0 | 0 | 1 | | Eddward DeVilla | 0 | 0 | 0 | 2 | | Harri Kiiskinen | 0 | 1 | 0 | 1 | | Manoj Srivastava| 1 | 0 | 0 | 0 | | Manuel Hermenegildo | 0 | 0 | 1 | 0 | #+TBLR: action:barplot rownames:1 columns:(1 2 3 4) showcode:t The #+TBLR: line below that produces a bar plot of the data. There are more details below. The code is at http://www.stats.ox.ac.uk/~davison/software/org-table-R/org-table-R.el It would be great to get any feedback on this. My thought was that something like this has the potential to provide a unified plotting and table formula interface, which might be attractive to people who know and/or like and/or want to learn R. There's lots more that could be done with this, and there must be all sorts of bugs in it at this stage. But if there's any interest in it then it could be improved. Anyway, read on if you're interested in hearing more details about the options and actions available. Dan Currently, the available actions are - plot A simple plot of the x and y values. If no x-values are specified then the the y values are plotted against 1,2,...,length(y). If lines:t then the points are joined by lines. - lines Equivalent to action:plot lines:t - points Equivalent to action:plot lines:nil - barplot Create a bar plot. A vertical bar is drawn for each row, with height given by the value in that row. If multiple columns are selected the bars for different columns are placed side-by-side. - hist A histogram - density A smoothed histogram - image A plot of a table in which each cell is coloured according its numeric value. - tabulate Create a table containing counts of the distinct values of the columns selected (if v columns are selected, the table will be v-dimensional, giving the counts of joint occurrences of the
