Blog Archives

Knitr with Bio7

April 16, 2015
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16.04.2015 In Bio7 it is possible to write a documentation in knitr. A simple visual and textual HTML editor (based on JavaFX) and an embedded Latex editor (based on TeXclipse) helps in the creation of a *.html or *.pdf documentation. For the *.pdf creation a TeX environment has to be available (Windows e.g. MiKTeX). Overview

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Bio7 2.0 for Windows 32 bit Release

March 24, 2015
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24.03.2015 Because of some requests of a Windows 32 bit version of Bio7 2.0 I uploaded a built to sourceforge. Release notes: Updated R to version 3.1.3 Updated ImageJ to version 1.49p Added some ImageJ dialog options (to stay on top, e.g., the ROI Manager) Updated Java to version 1.8.40 Updated the JavaFX embedded SceneBuilder

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Bio7 Overview Video

March 6, 2015
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06.03.2015 For the upcoming EclipseCon 2015 where I present the Bio7 application I created an overview video (see below) which summarizes some of the main Bio7 functionality. This time the Eclipse Con is co-located with the FOSS4G. So many interesting things will be presented at one place. If you find the time don’t miss this

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Bio7 2.0 for Linux Released!

January 31, 2015
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Bio7 2.0 for Linux Released!

01.02.2015 I released the Linux version of Bio7 2.0 (see screenshot below). For an overview of the new Bio7 features follow the link: Bio7 2.0 new features Added Linux features: A new Java menu action (in the Scripts menu) is available to start a Py4J server which can communicate to Java and CPython (if enabled

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Image Data Transfer to R with ImageJ and Bio7 2.0

December 9, 2014
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09.12.2014 In the new version of Bio7 2.0 i added some new easy to use functions to transfer image data from ImageJ to R. For example, you can now drag a folder of images on the ImageJ-Canvas view, open them memory efficient as a virtual stack in ImageJ and transfer them with one action as

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Bio7 2.0 for Windows Released!

December 1, 2014
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Bio7 2.0 for Windows Released!

01.12.2014 A new Windows version of Bio7 is available. Many new features have been added to Bio7 2.0 which is now based on Eclipse 4.4. Highlights are the improved R editor, the R debugging Graphical User Interface (using the standard R debugger), the integrated Java Development Tools (JDT) to create Java simulation models with a

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R Debugging GUI Improvements for Bio7

November 20, 2014
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20.11.2014 In my last post i presented the first version of a debugging GUI for R in Bio7 which is just a visual wrapper for the default R debugging functions. In the meantime i added some new methods and also improved the visualization. For the upcoming Bio7 release i have to make some cleanups but

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Simple R Debugging GUI for Bio7

September 26, 2014
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26.09.2014 For the next release of Bio7 I implemented a first simple debugging GUI (Graphical User Interface) for R scripts. For the debugging process a change from Rserve to an available Java R console connection in Bio7 is necessary (with Rserve alone a debugging interface wouldn’t be possible). Both connections runs in the same process

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Bio7 R Documentation and Plot Examples

July 18, 2014
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18.07.2014 A very time expensive process is the documentation of software you created yourself. I was finally able to update and improve the documentation for Bio7 and the embedded R “Graphical User Interface”. For the documentation this time i used Lyx to export the LaTeX document as HTML with the available eLyXer export module. The

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R editor improvements for Bio7

January 31, 2014
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R editor improvements for Bio7

30.01.2014 For the next release of Bio7 based on Eclipse 4.4 an improvement of the R editor for a much better editing experience of R scripts will be available. The integrated editor itself is built bottom-up (based upon an Eclipse editor editor template) although there a great editor frameworks (DLTK) or frameworks to develop programming

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