Software and databases
Virus orthologous groups
The database of virus orthologous groups, including virus specific marker groups for metagenomics and universal groups for diversity estimation in virus ecology.
Normalization Visualization TOOL (NVT)
NVT is an R package for the assessment of RNA-Seq normalization methods.
HoloVir is a robust and flexible data analysis pipeline that provides an optimised and validated workflow for taxonomic and functional characterisation of viral metagenomes.
The accessibility of almost complete genome sequences of uncultivable microbial species from metagenomes necessitates computational methods predicting microbial phenotypes solely based on genomic data. Comparative genomics can be utilized for the prediction of microbial phenotypes. The PICA framework facilitates application and comparison of different machine learning techniques for phenotypic trait prediction. We have improved and extended PICA's support vector machine plug-in and suggest its applicability to large-scale genome databases and incomplete genome sequences.