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Section: New Software and Platforms


Iedera : subset seed design tool

Keywords: Computational biology - Sequence alignment - Spaced seeds

Scientific Description

Iedera is a tool based on a weighted automata framework that enables to compute spaced seeds, associated probability distributions, scores/costs, counts, and even polynomials on a classical semi-ring framework. Seed design is computed by full enumeration or hill-climbing optimization.

Functional Description

Iedera is a tool to select and design subset seed and vectorized subset seed patterns. Spaced seeds and transition-constrained spaced seeds can be perfectly represented in the subset seed model.