Anu Bourgeois, Pavel Skums, Xiang Wan, Alex Zelikovsky's Bioinformatics Research and Applications: 12th International PDF

By Anu Bourgeois, Pavel Skums, Xiang Wan, Alex Zelikovsky

ISBN-10: 3319387812

ISBN-13: 9783319387819

ISBN-10: 3319387820

ISBN-13: 9783319387826

This ebook constitutes the court cases of the twelfth overseas Symposium on Bioinformatics examine and purposes, ISBRA 2016, held in Minsk, Belarus, in June 2016.
The 25 papers provided during this quantity have been rigorously reviewed and chosen from seventy seven submissions. They have been equipped in topical sections named: subsequent iteration sequencing facts research; protein-protein interactions and networks; protein and RNA constitution; phylogenetics; series research; and statistical methods.

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Extra resources for Bioinformatics Research and Applications: 12th International Symposium, ISBRA 2016, Minsk, Belarus, June 5-8, 2016, Proceedings

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We have run the programs with 1, 4, 8, 16, and 32 threads. In all cases, we have measured 36 P. Bonizzoni et al. Table 1. Comparison of FSG and SGA, for different minimum overlap lengths and numbers of threads. The wall-clock time is the time used to compute the string graph. The CPU time is the overall execution time over all CPUs actually used. Min. overlap No. 638 the elapsed (wall-clock) time and the total CPU time (the time a CPU has been working). 30 GHz CPUs. The server has a NUMA architecture with 64 GiB of RAM for each node (256 GiB in total).

B) Sequence errors occur on both sides of the reads. This type of error is considered to be rare since sequence error should occur twice. 42 T.

An immediate advantage of string graphs is that they can disambiguate some repeats that methods based on c Springer International Publishing Switzerland 2016 A. Bourgeois et al. ): ISBRA 2016, LNBI 9683, pp. 27–39, 2016. 1007/978-3-319-38782-6 3 28 P. Bonizzoni et al. de Bruijn graphs might resolve only at later stages—for example, the repeats that are longer than k/2 but contained in a read. Even without repetitions, analyzing only k-mers instead of the longer reads can result in some information loss, since bases of a read that are more than k positions apart are not part of the same k-mer, but might be part of the same read.

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Bioinformatics Research and Applications: 12th International Symposium, ISBRA 2016, Minsk, Belarus, June 5-8, 2016, Proceedings by Anu Bourgeois, Pavel Skums, Xiang Wan, Alex Zelikovsky


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