News from the bioinfweb project

Version 3.4.0 of bioinfweb.commons.java released

Do., 26 Nov. 2020 00:00:00 MEZ

A new version of our Java library bioinfweb.commons has been released. It consists of different modules to be used in bioinformatics or in a general purpose that are made available under GNU LGPL 3.

Software developed in our group presented at the WWU reproducible research workshop

Di., 11 Feb. 2020 00:00:00 MEZ

We presented how our software components help to improve reproducibility of scientific workflows at a workshop organized by the WWU "Opening Reproducible Research" project (o2r) team.

This press release provides an overview on the results of the workshop.

Paper on JPhyloIO published

Mo., 22 Juli 2019 00:00:00 MESZ

Our library for reading and writing of phylogenetic file formats through one event-based interface was published in BMC Bioinformatics.

St√∂ver BC, Wiechers S, M√?ller KF: JPhyloIO: A Java library for event-based reading and writing of different phylogenetic file formats through a common interface. BMC Bioinformatics 2019, 20:401

Version 1.0.0 of JPhyloIO released

Mi., 12 Juni 2019 00:00:00 MESZ

A new version of our library for reading and writing of phylogenetic file formats through one event-based interface was released.

The initial feature set is now complete and JPhyloIO is now available for public production use under the major version number 1.

Version 2.15.0 of TreeGraph released

Fr., 26 Apr. 2019 00:00:00 MESZ

A new version of our phylogenetic tree editor can be downloaded from http://treegraph.bioinfweb.info/Download.

Web service for viewing JPhyloIO event streams

Di., 12 M�rz 2019 00:00:00 MEZ

A web service for JPhyloIO that lists event streams produced from any phylogenetic input file is now available as part of the JPhyloIO documentation. It allows developers to easily inspect the stream of linear data events JPhyloIO produces from a MSA or tree document. This is helpful for getting started with JPhyloIO or for debugging purposes.

Try it here

New version of PhyDE 2 available

Do., 29 Nov. 2018 00:00:00 MEZ

A new version of PhyDE 2 is now available. It allows to edit several multiple sequence alignments at the same time.

Version 1.1.0 of AlignmentComparator released

Mi., 18 Apr. 2018 00:00:00 MESZ

A new version of our application to visually compare alternatibe multiple sequence alignments of the same dataset is available.

This is the first feature-complete version of AlignmentComparator that now allows to compare any number of alignments and to attach notes to the comparison.

Version 0.9.0 of LibrAlign released

Mi., 18 Apr. 2018 00:00:00 MESZ

A new version of our GUI library providing powerful components for displaying and editing multiple sequence alignments and attached raw- and metadata was released.

Poster on the GBOL 5 web app presented at the 6th MGSE Symposium

Mi., 21 M�rz 2018 00:00:00 MEZ

A poster on the GBOL 5 web app is being presented at the 7th annual symposium of the M√?nster Graduate School of Evolution (MGSE).

Version 3.0.2 of TIC released

Mo., 26 Feb. 2018 00:00:00 MEZ

A new version of our Java library for creating toolkit independent GUI components to be used with Swing and SWT was released.

bioinfweb repositories on GitHub

Mi., 30 Aug. 2017 00:00:00 MESZ

The source codes of now six bioinfweb software projects are now available on GitHub. The repositories of TreeGraph 2, JPhyloIO, LibrAlign, bioinfweb.commons.java, AlignmentComparator and TIC are from now on synchronized with GitHub.

Feedback and pull requests are welcome.

bioinfweb Projects on ResearchGate

Mo., 21 Aug. 2017 00:00:00 MESZ

Our scientific software projects now each have their own ResearchGate page. Follow the projects to receive updates on new releases, features and publications. Each project also contains a section to ask questions about the software.

The following project pages are now availabble:

Version 2.14.0 of TreeGraph released

Mo., 26 Juni 2017 00:00:00 MESZ

A new version of our phylogenetic tree editor can be downloaded from http://treegraph.bioinfweb.info/Download.

New article published

Mo., 22 Mai 2017 00:00:00 MESZ

Our article Barr√© P, St√∂ver BC, M√?ller KF, Steinhage V: LeafNet: A computer vision system for automatic plant species identification was published in Ecological Informatics.

Poster on metadata processing in JPhyloIO, LibrAlign and TreeGraph 2 presented at the 6th MGSE Symposium

Fr., 24 M�rz 2017 00:00:00 MEZ

A poster on the use of externally defined ontologies in metadata processing in JPhyloIO, LibrAlign and TreeGraph 2 is being presented at the 6. annual symposium of the M√?nster Graduate School of Evolution (MGSE).

Version 2.12.0 of TreeGraph released

Mo., 9 Jan. 2017 00:00:00 MEZ

A new version of our phylogenetic tree editor can be downloaded from http://treegraph.bioinfweb.info/Download.

It offers new functionality in calculating node/branch data and visualizing metadata.

Demo Applications for JPhyloIO available

Fr., 2 Dez. 2016 00:00:00 MEZ

As a part of the documentation of our Java library JPhyloIO for event-based reading and writing of phylogenetic data, we now provide four demo applications that allow to quickly get started and show the different features.

bioinfweb on twitter

Mo., 14 Nov. 2016 00:00:00 MEZ

bioinfweb is now on twitter. You can find news on releases and other events at twitter.com/bioinfweb.

New article published

Do., 8 Sep. 2016 00:00:00 MESZ

Our following new article has been published:

Grimm J, Hoffmann M, St√∂ver BC, M√?ller KF, Steinhage V: Image-Based Identification of Plant Species Using a Model-Free Approach and Active Learning. In Friedrich G, Helmert M, Wotawa F: KI 2016: Advances in Artificial Intelligence, 2016, Springer International Publishing; 169-176

New article published

Do., 1 Okt. 2015 00:00:00 MESZ

Our following new article has been published:

Kilian N, Henning T, Plitzner P, M√?ller A, G√?ntsch A, St√∂ver BC, M√?ller KF, Berendsohn WG, Borsch T: Sample data processing in an additive and reproducible taxonomic workflow by using character data persistently linked to preserved individual specimens. Database, 2015:bav094

Our group developed the components necessary to process molecular data, including the libraries LibrAlign, JPhyloIO and TIC.

Version 2.5.0 of TreeGraph 2 released and presented at GCB

So., 27 Sep. 2015 00:00:00 MESZ

A new version (2.5.0) of our editor for phylogenetic trees was released. Additionally new features were presented on a poster at the German Conference on Bioinformatics 2015.

Version 1.1.0 of bioinfweb.commons.java released

Mi., 11 Feb. 2015 00:00:00 MEZ

A new version of our Java library bioinfweb.commons has been released. It consists of different modules to be used in bioinformatics or in a general purpose that are made available under GNU GPL 4.

Version 0.3.0 of LibrAlign released

Mo., 12 Jan. 2015 00:00:00 MEZ

A new alpha version of our Java alignment GUI library LibrAlign has been released. It was presented at the Multiple Sequence Alignment Workshop at IPAM, UCLA (Los Angeles).

AlignmentComparator was presented at the MSA Workshop at IPAM, UCLA

Mo., 12 Jan. 2015 00:00:00 MEZ

Our software AlignmentComparator that allows comparing alternative MSAs of the same data set has been presented at the Multiple Sequence Alignment Workshop at IPAM (UCLA, Los Angeles).