Transcriptomics data produced with high-throughput sequencing methods targets nearly exclusively gene regions of the genomes and can potentially provide an inexpensive approach for evolutionary and comparative analyses. The challenge is to assemble the reads...
The Saimaa Ringed Seal Genome Project is producing a high-quality reference genome as well as re-sequenced genomes of hundreds of individuals. We are involved in the analysis of re-sequencing data with the aim of...
Canopy is a new method for co-estimation of phylogeny and phylogeny-aware sequence alignment. Canopy is built on top of PRANK and allows splitting the progressive alignment into subproblems, computing these separately and then merging...
Marker gene studies often use short amplicons spanning one or more hypervariable regions from an rRNA gene to interrogate the community structure of uncultured environmental samples. Although the target regions are chosen for their discriminatory...
The process of evolutionary sequence analysis is hindered by both software complexity and the multi-step nature of data integration, management and visualisation. A common workflow will invoke numerous programs and custom scripts, passing information in flat files...