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pub:neuroanatomy:frulhns:start [2013/12/30 19:02] – [Data] jefferissi:frulhns:start [2019/06/20 08:53] (current) – [Data] jefferis
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 Cell, Volume 155, Issue 7, 1610-1623, 19 December 2013 [[http://dx.doi.org/10.1016/j.cell.2013.11.025|doi:10.1016/j.cell.2013.11.025]]\\ Cell, Volume 155, Issue 7, 1610-1623, 19 December 2013 [[http://dx.doi.org/10.1016/j.cell.2013.11.025|doi:10.1016/j.cell.2013.11.025]]\\
 Johannes Kohl*, Aaron D. Ostrovsky*, Shahar Frechter, Gregory S.X.E. Jefferis Johannes Kohl*, Aaron D. Ostrovsky*, Shahar Frechter, Gregory S.X.E. Jefferis
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 +====== Overview ======
 +
 +The best way to explore the analysis of the neuroanatomical and electrophysiological data in this paper is to visit the documentation site for the R [[https://jefferis.github.io/frulhns|frulhns]] package. 
  
 ====== Data ====== ====== Data ======
-The following data will be made available on publication+The following data is available to accompany the publication
  
-  * Tabular data underlying the figures is being made available through a dedicated R package, [[https://github.com/jefferis/frulhns|frulhns]] available on github.+  * Tabular data underlying the figures is available through a dedicated R package, [[https://github.com/jefferis/frulhns|frulhns]] hosted on github.
     * The vignette for this package completely recreates the Supplemental statistics table for the paper.     * The vignette for this package completely recreates the Supplemental statistics table for the paper.
-    * The current version of the package requires the [[https://github.com/jefferis/AnalysisSuite|AnalysisSuite]] R codebase to be installed at a specific location (''~/projects/AnalysisSuite'', see github README) in order for the vignettes to be built from scratch. +    * The package has been updated to work with regular R packages 
-    * Cached versions of the vignettes (v0.2.1) are available here:+    * Older versions of the package requires the [[https://github.com/jefferis/AnalysisSuite|AnalysisSuite]] R codebase to be installed at a specific location (''~/projects/AnalysisSuite'', see github README) in order for the vignettes to be built from scratch. 
 +    * Cached versions of the vignettes (frulhns v0.4.1) are available here:
       * [[http://jefferislab.org/si/frulhns/neurons.pdf|neurons.pdf]]       * [[http://jefferislab.org/si/frulhns/neurons.pdf|neurons.pdf]]
       * [[http://jefferislab.org/si/frulhns/statistics.pdf|statistics.pdf]]       * [[http://jefferislab.org/si/frulhns/statistics.pdf|statistics.pdf]]
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       * [[http://flybrain.mrc-lmb.cam.ac.uk/si/frulhns/traces.IS2.zip|amira format]]       * [[http://flybrain.mrc-lmb.cam.ac.uk/si/frulhns/traces.IS2.zip|amira format]]
       * [[http://flybrain.mrc-lmb.cam.ac.uk/si/frulhns/traces.IS2.swc.zip|swc format]]       * [[http://flybrain.mrc-lmb.cam.ac.uk/si/frulhns/traces.IS2.swc.zip|swc format]]
-  * 3D confocal image data (on a hard drive on request to Greg)+  * 3D confocal image data (on a hard drive, on request to Greg)
 ====== Electrophysiological Analysis ====== ====== Electrophysiological Analysis ======
 Analysis and plotting of electrophysiological data initially acquired with Neuromatic/Nclamp was carried out in R, primarily using a custom R package, [[https://github.com/jefferis/gphys|gphys]]. Although I would generally recommend using the latest version available via github, to install the specific package version associated with the manuscript, do as follows: Analysis and plotting of electrophysiological data initially acquired with Neuromatic/Nclamp was carried out in R, primarily using a custom R package, [[https://github.com/jefferis/gphys|gphys]]. Although I would generally recommend using the latest version available via github, to install the specific package version associated with the manuscript, do as follows:
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 Detailed methods are included in the manuscript supplemental information. Further information on these topics is available here Detailed methods are included in the manuscript supplemental information. Further information on these topics is available here
   * [[alex:projects:odour_presentation_system:start|Odour Delivery]]   * [[alex:projects:odour_presentation_system:start|Odour Delivery]]
-  * [[odorants]] Full list of odorants in this study+  * [[pub:neuroanatomy:frulhns:odorants]] Full list of odorants in this study
   * [[warping_manual:start|Image Registration]]   * [[warping_manual:start|Image Registration]]
   * [[https://github.com/jefferis/AnalysisSuite|Morphological neuroanatomy in R]] aka AnalysisSuite   * [[https://github.com/jefferis/AnalysisSuite|Morphological neuroanatomy in R]] aka AnalysisSuite

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