Blog Archives

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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Bio7 1.7.1 MacOSX Released

October 15, 2013
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Bio7 1.7.1 MacOSX Released

15.10.2013 Finally i released  Bio7 1.7.1 for MacOSX. This release is bundled with a Java Runtime Environment and the latest R version (3.0.2) for MacOSX. For the plot functionality eventually XQuartz has to be installed (if not already installed!). Please note the installation requirements at the bottom of the page. Here are some screenshots for

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Bio7 1.7.1 for Linux Released

September 24, 2013
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Bio7 1.7.1 for Linux Released

24.09.2013 I released a new Linux version of Bio7 (64-bit only – see Screenshots below). For an overview of the new features please read the release notes for Windows 1.7.0 and 1.7.1: http://bio7.org/?p=2049 http://bio7.org/?p=2112 In addition some Linux specific improvements are embedded in this release. Additional Linux features: Rserve can be opened with a Gnome

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New Bio7 1.7.1 Release with Improved R Plot Image Display

September 6, 2013
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New Bio7 1.7.1 Release with Improved R Plot Image Display

05.09.2013 I released a new Windows version of Bio7. This release improves the general R plot functionality of Bio7. The default image plots are now displayed in a Image stack if more than one plot command is executed. In this way all plots are automatically openend and not only the last image plot. Multiple plots

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Bio7 1.7 for Windows Released!

August 8, 2013
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Bio7 1.7 for Windows Released!

07.08.2013 A new Windows version of Bio7 is available. This version comes with a lot of new features and improvements for Java, R and ImageJ. One highlight is that you can now interpret Jython (Python) code with Bio7. In addition a new console implementation is available which offers access to a native shell, different Java

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Cluster Multiple Images with ImageJ and R

August 31, 2012
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30.08.2012 With Bio7 1.6 it is possible to send multiple images from ImageJ to R without the need to open them in the Graphical User Interface of ImageJ for speed improvements. With a simple script written in Java, Groovy or BeanShell a new Bio7 API command can be used (see below) to transfer images and

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Bio7 1.6 for Windows and Linux released!

August 1, 2012
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Bio7 1.6 for Windows and Linux released!

01.08.2012 Finally i released a new version of Bio7 with many improvements and new features. Updated tutorials are available, too. The new Bio7 1.6 release can be downloaded here. Please also download the examples *.zip file from the sourceforge website which contains new examples for Bio7 1.6 (e.g. an example to cluster an image folder with

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Landscape Metrics with R, SDMTools, ImageJ and Bio7

February 2, 2012
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01.02.2012 Landscape metrics were developed to analyze spatial patterns of landscapes (e.g. composition and spatial arrangement). In R it is possible to calculate these metrics with the “SDMTools” package. Bio7 offers an easy to use interface to R and ImageJ and can use these tools to simplify a workflow to analyze image data (e.g. vegetation

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Image Data from ImageJ to R and Vice Versa

August 5, 2011
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In recent years many R packages have been developed to enable image analysis in R. As an alternative the combination of R with a powerful image analysis software like ImageJ offers many advanced image analysis interfaces and algorithms not yet available in R. Bio7 integrates both applications in a Rich Client Plattform based on Eclipse

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