We cooperate with Mark Simmons (Colorado State Universtiy, USA) on comparing alternative computerized alignment procedures via simulation studies and empirical data, and contrast these procedures with current approaches for combining alignment and tree building into one step. We are also interested in ways to incorporate secondary structure information into alignment, and in particular in the treatment of single event sequence blocks and microstructural changes in automatic and manual alignment.
Stöver BC, Müller KF: AlignmentComparator - Comparing and annotating alternative alignments of the same data set. IPAM Multiple Sequence Alignment Workshop; Los Angeles, USA; 2015 (Details)
Stöver BC, Müller KF: AlignmentComparator - A GUI application to efficiently visualize and annotate differences between alternative multiple sequence alignments. 4th annual Münster Graduate School of Evolution Symposium; Münster, Germany; 2014 (Details)
- AlignmentComparator (http://bioinfweb.info/AlignmentComparator)