A tool for aligning DNA/RNA sequences and protein sequences.
Swat is a java commandline software based on dynamic programming to calculate optimal local alignments of DNA/RNA sequences and protein sequences.
Documentation:
Please also see our corresponding publication:
Fürstberger A, Maucher M, Kestler HA. Extended pairwise local alignment of wild card DNA/RNA-sequences using dynamic programming. J Stat Comput Simul 85(1): 3-13, 2015. https://doi.org/10.1080/00949655.2014.928294
Our paper "Constraining classifiers in molecular analysis: invariance and robustness" has been published in Journal of the Royal Society Interface.
Our paper "Measuring Mental Effort for Creating Mobile Data Collection Applications" has been published in International Journal of Environmental Research and Public Health.