منابع مشابه
Genome Assembly and Parallel Computers
I am a first year PhD student in Materials Science and Engineering. I did my Bachelor’s and my Master’s at the University of Arizona, with an emphasis on computational materials for the latter, and my thesis dealt with automating the analysis of dendritic metal micrographs using computer vision techniques. My current research, although still in its infancy, will involve the modeling of liquid s...
متن کاملParallel Assembler for Fuzzy Genome Sequence Assembly
Assembly is an NP-Hard problem, which involves comparing fragments that have a time complexity of O(n). This paper presents a parallel approach for sequence assembly. The parallel technique is based on classification to group organisms by similarity rather than an embarrassingly parallel approach that requires duplication of the data across all nodes. This process of classification, based on DN...
متن کاملParallel and Memory-Efficient Reads Indexing for Genome Assembly
As genomes, transcriptomes and meta-genomes are being sequenced at a faster pace than ever, there is a pressing need for e cient genome assembly methods. Two practical issues in assembly are heavy memory usage and long execution time during the read indexing phase. In this article, a parallel and memory-e cient method is proposed for reads indexing prior to assembly. Speci cally, a hash-based s...
متن کاملSmall World Asynchronous Parallel Model for Genome Assembly
www.postersession.com There is a growing gap between the output of new generation of massively parallel sequencing machines and the ability to process and analyze the resulting data. Sequencing throughput has recently been increasing at a rate of about 5-fold per year, while computer power follows "Moore’ Law," doubling only every 18 or 24 months. Single server's computation power has been alre...
متن کاملWhole-genome shotgun assembly and comparison of human genome assemblies.
We report a whole-genome shotgun assembly (called WGSA) of the human genome generated at Celera in 2001. The Celera-generated shotgun data set consisted of 27 million sequencing reads organized in pairs by virtue of end-sequencing 2-kbp, 10-kbp, and 50-kbp inserts from shotgun clone libraries. The quality-trimmed reads covered the genome 5.3 times, and the inserts from which pairs of reads were...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2017
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btx648