An Efficient Algorithm for Generating Super Condensed Neighborhoods
Luís M. S. Russo,
Approximate string matching is the problem of finding a pattern in a text
allowing for some errors to occur.
Indexing methods for the approximate string matching problem spend a
considerable effort generating condensed neighborhoods. In this session we
point out that condensed neighborhoods are not a minimal
representation of a pattern neighborhood. We show that we can restrict
our attention to super condensed neighborhoods which are minimal. We
then present a basic algorithm for generating Super Condensed
Neighborhoods. The algorithm runs in O(m s), where m is the
pattern size and s is the size of the super condensed
neighborhood. Previous algorithms took O(m c) time, where c is the
size of the condensed neighborhood. We present an implementation of the
algorithm using modern Bit-Parallelism and Increased Bit-Parallelism
Date: 2005-Feb-10 Time: 16:30:00 Room: Room 425
For more information:
Workshop “Metabolism and mathematical models: Two for a tango” – 2nd Edition
Title: Workshop Metabolism and mathematical models: Two for a tango – 2nd Edition
Dates: October 25-26, 2022
Location: This workshop will be held in a virtual way
The topic of this workshop is metabolism in general, with a special focus, although not exclusive, on parasitology. Besides an exploration of the biological, biochemical and biomedical aspects, the workshop will also aim at presenting some of the mathematical modelling, algorithmic theory and software development that have become crucial to explore such aspects.
This workshop is being organised in the context of two projects, both with the Inria European Team Erable. One of the projects involves a partnership with the University of São Paulo (USP), in São Paulo, Brazil, more specifically the Institute of Mathematics and Statistics (IME) and the Institute of Biomedical Sciences – Inria Associated Team Capoeira – and the other involves the Inesc-ID/IST in Portugal, ETH in Zürich and EMBL in Heidelberg – H2020 Twinning Project Olissipo.
The workshop is open to all members of these two projects but also, importantly, to the community in general.
The program and more details are available here.