News

VarCap: a new method for genotyping of prokaryotic populations

12.03.17

Publication

We created VarCap, a fully automated workflow that allows scientists to rapidly predict variants within high coverage, short read paired end sequencing data. VarCap automatically performs quality filtering, mapping, variant calling and post-filtering of the predicted variants. VarCap can be ...
- VarCap server
- Publication
New website for Virus Orthologous Groups (VOG)

03.03.17

News

Along with the new release 80 of our Virus Orthologous Groups (VOG) we have launched a public webserver for VOGDB at http://vogdb.org. The server provides information about the VOG, interactive access to the data and a download area for ...
- VOGDB
Critical Assessment of Metagenome Interpretation − a benchmark of computational metagenomics software

23.02.17

Publication

In metagenome analysis, computational methods for assembly, taxonomic profiling and binning are key components facilitating downstream biological data interpretation. However, a lack of consensus about benchmarking datasets and evaluation metrics complicates proper performance assessment. The Critical Assessment of Metagenome Interpretation ...
- Preprint
CUBE coordinates federal project to establish national bioinformatics infrastructure

10.01.17

News

The Federal Ministry of Science, Research and Economics has granted a federal project to establish software and database infrastructure for life science. CUBE will coordinate this project, which has a total volume of 660k EUR from 2017 to 2020. The main ...
HAPPY NEW YEAR!

02.01.17

Event

We wish all our team, our students, and our collaboration partners a happy, successful and peaceful new year!
Job opening: Group Leader Position

27.10.16

Personal

The Division of Computational Systems Biology at the University of Vienna is offering a

Group Leader Position in Bioinformatics

CUBE - the division of Computational Systems Biology - is part of the Department of Microbiology and Ecosystem Science of the ...
Virus Orthologous Groups: A novel resource for virus (meta)genomics

21.08.16

News

Orthologous groups are a central resource for comparative (meta-)genomics. At CUBE we have established a novel resource of Virus Orthologous Groups (VOGs), which is based all current RefSeq genomes. It therefore represents all viral lineages of which complete genomes are available. ...
- VOG download
Normalization visualization tool (NVT) released

21.08.16

Publication

Measuring differential gene expression is a common task in the analysis of RNA-Seq data. To identify differentially expressed genes between two samples, it is crucial to normalize the data sets. While multiple normalization methods are available, all of them are ...
- NVT Download
- Publication
Holovir released, HoloVir: a workflow for metaviromics in invertebrate holobionts

14.07.16

News

HoloVir is a robust and flexible data analysis pipeline that provides an optimized and validated workflow for taxonomic and functional characterization of viral metagenomes derived from invertebrate holobionts. It has been ...
- HoloVir Download
- Publication
Public release of CONSPRED genome annotation pipeline

14.07.16

News

CONSPRED is a prokaryotic genome annotation framework that performs various intrinsic gene predictions, homology searches, predictions of non-coding genes, and complex features and integrates all evidence into a consensus annotation.

CONSPRED 1.28 has now been publicly released along with an applications ...