Ben Stöver
Nees-Institut für Biodiversität der Pflanzen • Meckenheimer Allee 170 • 53115 Bonn
- Telefon: +49 228 73 2681
- Telefax: +49 228 73 3120
- E-Mail: stoever
bioinfweb.info - Room: 113
Ben Stöver is a member of the following group(s)
Curriculum vitae
| 2009-2010 | Diploma theses at the Evolution and Biodiversity of Plants group of Prof. Müller (Institute for Evolution and Biodiversity, University of Münster in cooperation with Prof. Quandt (Nees Institute, University of Bonn). Title: "Hair pin initiated repeats" |
| 2009-present | Student research assistant (part time) at the Evolution and Biodiversity of Plants group of Prof. Müller (Institute for Evolution and Biodiversity, University of Münster). |
| 2009 | Oral diploma examinations in Biology (Subjects: Botany, Neurobiology, Informatics) |
| 2008-2009 | Student research assistant (part time) at the Systematics and Evolution group of Kai Müller (Nees Institute, University of Bonn). Task: Development of different phylogenetic Software projects (e.g. TreeGraph 2) |
| 2006-2009 | Student research assistant (part time) at the chair of Prof. Bleckmann (Department for comparative Neurobiology, Institute for zoology, University of Bonn). Task: Development of a three dimensional video tracking software for moving fish in the DFG priority program 1207 ("Strömungsbeeinflussing in der Natur und Technik") |
| 2005 | Intermediate diploma in Biology at the University of Bonn (Subjects: Plant Physiology, Neurobiology, Genetics, Physics, Chemistry) |
| 2002-2003 | Community service at the German Red Cross |
| 2002 | General qualification for university entrance (Abitur), Stiftisches Gymnasium Düren, Specialized courses: Biology, Physics |
| 1982 | Born, December 10th in Düren, Germany |
Publications
printed or in press
Stöver B C, Müller K F (2010) TreeGraph 2: Combining and visualizing evidence from different phylogenetic analyses. BMC Bioinformatics, 11, 7. 
Background
Today it is common to apply multiple potentially conflicting data sources to a given phylogenetic problem. At the same time, several different inference techniques are routinely employed instead of relying on just one. In view of both trends it is becoming increasingly important to be able to efficiently compare different sets of statistical values supporting (or conflicting with) the nodes of a given tree topology, and merging this into a meaningful representation. A tree editor supporting this should also allow for flexible editing operations and be able to produce ready-to-publish figures.
Results
We developed TreeGraph 2, a GUI-based graphical editor for phylogenetic trees (available from http://treegraph.bioinfweb.info/). It allows automatically combining information from different phylogenetic analyses of a given dataset (or from different subsets of the dataset), and helps to identify and graphically present incongruences. The program features versatile editing and formatting options, such as automatically setting line widths or colors according to the value of any of the unlimited number of variables that can be assigned to each node or branch. These node/branch data can be imported from spread sheets or other trees, be calculated from each other by specified mathematical expressions, filtered, copied from and to other internal variables, be kept invisible or set visible and then be freely formatted (individually or across the whole tree). Beyond typical editing operations such as tree rerooting and ladderizing or moving and collapsing of nodes, whole clades can be copied from other files and be inserted (along with all node/branch data and legends), but can also be manually added and, thus, whole trees can quickly be manually constructed de novo. TreeGraph 2 outputs various graphic formats such as SVG, PDF, or PNG, useful for tree figures in both publications and presentations.
Conclusion
TreeGraph 2 is a user-friendly, fully documented application to produce ready-to-publish trees. It can display any number of annotations in several ways, and permits easily importing and combining them. Additionally, a great number of editing- and formatting-operations is available.
[Full article] [DOI: 10.1186/1471-2105-11-7]
Today it is common to apply multiple potentially conflicting data sources to a given phylogenetic problem. At the same time, several different inference techniques are routinely employed instead of relying on just one. In view of both trends it is becoming increasingly important to be able to efficiently compare different sets of statistical values supporting (or conflicting with) the nodes of a given tree topology, and merging this into a meaningful representation. A tree editor supporting this should also allow for flexible editing operations and be able to produce ready-to-publish figures.
Results
We developed TreeGraph 2, a GUI-based graphical editor for phylogenetic trees (available from http://treegraph.bioinfweb.info/). It allows automatically combining information from different phylogenetic analyses of a given dataset (or from different subsets of the dataset), and helps to identify and graphically present incongruences. The program features versatile editing and formatting options, such as automatically setting line widths or colors according to the value of any of the unlimited number of variables that can be assigned to each node or branch. These node/branch data can be imported from spread sheets or other trees, be calculated from each other by specified mathematical expressions, filtered, copied from and to other internal variables, be kept invisible or set visible and then be freely formatted (individually or across the whole tree). Beyond typical editing operations such as tree rerooting and ladderizing or moving and collapsing of nodes, whole clades can be copied from other files and be inserted (along with all node/branch data and legends), but can also be manually added and, thus, whole trees can quickly be manually constructed de novo. TreeGraph 2 outputs various graphic formats such as SVG, PDF, or PNG, useful for tree figures in both publications and presentations.
Conclusion
TreeGraph 2 is a user-friendly, fully documented application to produce ready-to-publish trees. It can display any number of annotations in several ways, and permits easily importing and combining them. Additionally, a great number of editing- and formatting-operations is available.
[Full article] [DOI: 10.1186/1471-2105-11-7]
software
Stöver B C, Müller K F (2010) TreeGraph 2 - An editor for phylogenetic trees. http://treegraph.bioinfweb.info/.
Stöver B C, Bleckmann H (2009) GraphicMeasurer - A powerful program to analyze image and video data. http://gm.bioinfweb.info/.
diploma thesis
Stöver B C (2010) Entwicklung und Implementierung eines Algorithmus zur Lokalisation von Haarnadel-bedingten Tandem-Wiederholungen. Fachgruppe Biologie, Rheinische Friedrich-Wilhelms Universität, Bonn. 75 pp.