From mboxrd@z Thu Jan 1 00:00:00 1970 From: Jambunathan K Subject: Re: A manuscript on "reproducible research" introducing org-mode Date: Thu, 16 Feb 2012 14:28:31 +0530 Message-ID: <81aa4jupc8.fsf@gmail.com> References: <20110905155520.18046s4zu5o3tbwg@www.biomedicale.univ-paris5.fr> <20110908120651.18821k1s7dd2ob0g@www.biomedicale.univ-paris5.fr> <87zkcjn84f.fsf@xtof-netbook.home> Mime-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable Return-path: Received: from eggs.gnu.org ([140.186.70.92]:47015) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1RxxB3-0005QT-Gu for emacs-orgmode@gnu.org; Thu, 16 Feb 2012 03:59:03 -0500 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1RxxAz-0005bU-47 for emacs-orgmode@gnu.org; Thu, 16 Feb 2012 03:58:57 -0500 Received: from mail-pz0-f41.google.com ([209.85.210.41]:62959) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1RxxAy-0005ZZ-VS for emacs-orgmode@gnu.org; Thu, 16 Feb 2012 03:58:53 -0500 Received: by dadv6 with SMTP id v6so1947086dad.0 for ; Thu, 16 Feb 2012 00:58:52 -0800 (PST) In-Reply-To: <87zkcjn84f.fsf@xtof-netbook.home> (Christophe Pouzat's message of "Wed, 15 Feb 2012 21:40:00 +0100") List-Id: "General discussions about Org-mode." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: emacs-orgmode-bounces+geo-emacs-orgmode=m.gmane.org@gnu.org Sender: emacs-orgmode-bounces+geo-emacs-orgmode=m.gmane.org@gnu.org To: Christophe Pouzat Cc: Christophe Pouzat , emacs-orgmode@gnu.org Christophe I see an ODT file in there - LFPdetection_in.odt http://hal.archives-ouvertes.fr/hal-00591455/ May I ask how the document was produced.=20 Do you have any insights on how the Org's ODT exporter performs wrt your input Org file. Just curious. > @article{Delescluse2011, > title =3D "Making neurophysiological data analysis reproducible: Why and = how?", > journal =3D "Journal of Physiology-Paris", > volume =3D "", > number =3D "0", > pages =3D " - ", > year =3D "2011", > note =3D "", > issn =3D "0928-4257", > doi =3D "10.1016/j.jphysparis.2011.09.011", > url =3D "http://www.sciencedirect.com/science/article/pii/S09284257110003= 74", > author =3D "Matthieu Delescluse and Romain Franconville and S=C3=A9bastie= n Joucla and Tiffany Lieury and Christophe Pouzat", > keywords =3D "Software", > keywords =3D "R", > keywords =3D "Emacs", > keywords =3D "Matlab", > keywords =3D "Octave", > keywords =3D "LATEX", > keywords =3D "Org-mode", > keywords =3D "Python", > abstract =3D "Reproducible data analysis is an approach aiming at complem= enting classical printed scientific articles with everything required to in= dependently reproduce the results they present. =E2=80=9CEverything=E2=80= =9D covers here: the data, the computer codes and a precise description of = how the code was applied to the data. A brief history of this approach is p= resented first, starting with what economists have been calling replication= since the early eighties to end with what is now called reproducible resea= rch in computational data analysis oriented fields like statistics and sign= al processing. Since efficient tools are instrumental for a routine impleme= ntation of these approaches, a description of some of the available ones is= presented next. A toy example demonstrates then the use of two open source= software programs for reproducible data analysis: the =E2=80=9CSweave fami= ly=E2=80=9D and the org-mode of emacs. The former is bound to R while the l= atter can be used with R, Matlab, Python and many more =E2=80=9Cgeneralist= =E2=80=9D data processing software. Both solutions can be used with Unix-li= ke, Windows and Mac families of operating systems. It is argued that neuros= cientists could communicate much more efficiently their results by adopting= the reproducible research paradigm from their lab books all the way to the= ir articles, thesis and books." > } --=20