Read e-book online A branch-and-cut algorithm for multiple sequence alignment PDF

By Althaus E.

Show description

Read Online or Download A branch-and-cut algorithm for multiple sequence alignment PDF

Best algorithms and data structures books

New PDF release: Combinatorial optimization theory and algorithms

This finished textbook on combinatorial optimization places certain emphasis on theoretical effects and algorithms with provably sturdy functionality, unlike heuristics. It has arisen because the foundation of a number of classes on combinatorial optimization and extra detailed themes at graduate point. because the whole booklet includes sufficient fabric for a minimum of 4 semesters (4 hours a week), one frequently selects fabric in an appropriate method.

Download e-book for kindle: Supporting Expeditionary Aerospace Forces: Evaluation of the by Patrick Mills

Within the years yet to come, the effectiveness of the Expeditionary Aerospace strength will pivot principally at the aid approach that underlies it, termed the Agile strive against aid (ACS) method. One key component to the ACS process is the digital countermeasure (ECM) pod procedure. for this reason, this documented briefing outlines the findings of a examine that assessed the application of the Reliability, Availability, and Maintainability of Pods (RAMPOD) database as an analytical instrument in help of the ECM pod approach.

Additional info for A branch-and-cut algorithm for multiple sequence alignment

Example text

Vm l = m + 1, to denote the set of arcs that span either i or v i vm m+1 collection of all maximal pairwise-incompatible sets of j edges S ⊆ E ij such that, for each edge {vli , vm } ∈ S, lb ≤ l ≤ le and mb ≤ m ≤ me Acknowledgements. We are grateful to an anonymous referee for the very detailed and helpful report and Tobias Achterberg for his patience in explaining us the details of this branch-and-cut framework SCIP. This work was partially supported by a fellowship within the ICSI Postdoc Program of the German Academic Exchange Service (DAAD), and by the German Federal Ministry of Education and Research, grant no.

Html 28. : On the complexity of multiple sequence alignment. J. Comput. Biol.

4. Computational experiments We tested our implementation, called COSA (COmbinatorial SequenceAlignment) using instances of the BAliBase library [27], containing 4 to 6 strings of about 50-130 amino acids each, subdivided into three groups according to different “identity levels”, that represent an index of the similarity of the strings (Group V1: identity > 35%, Group V2: identity 20 − 40%, Group V3: identity < 25%). The library also offers an evaluation program that computes a score between 0 and 1 indicating the percentage of correctly aligned characters with respect to reference alignments that have been hand-created using structural information.

Download PDF sample

A branch-and-cut algorithm for multiple sequence alignment by Althaus E.


by Donald
4.0

Rated 4.28 of 5 – based on 30 votes