PASQUAL: Parallel Techniques for Next Generation Genome Sequence Assembly
نویسندگان
چکیده
منابع مشابه
Parallel 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 کاملTablet—next generation sequence assembly visualization
SUMMARY Tablet is a lightweight, high-performance graphical viewer for next-generation sequence assemblies and alignments. Supporting a range of input assembly formats, Tablet provides high-quality visualizations showing data in packed or stacked views, allowing instant access and navigation to any region of interest, and whole contig overviews and data summaries. Tablet is both multi-core awar...
متن کاملEagleView: a genome assembly viewer for next-generation sequencing technologies.
The emergence of high-throughput next-generation sequencing technologies (e.g., 454 Life Sciences [Roche], Illumina sequencing [formerly Solexa sequencing]) has dramatically sped up whole-genome de novo sequencing and resequencing. While the low cost of these sequencing technologies provides an unparalleled opportunity for genome-wide polymorphism discovery, the analysis of the new data types a...
متن کاملConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
As a result of improvements in genome assembly algorithms and the ever decreasing costs of high-throughput sequencing technologies, new high quality draft genome sequences are published at a striking pace. With well-established methodologies, larger and more complex genomes are being tackled, including polyploid plant genomes. Given the similarity between multiple copies of a basic genome in po...
متن کاملMassively Parallel Mapping of Next Generation Sequence Reads Using GPUs
DNA sequence alignment problem can be broadly defined as the character-level comparison of DNA sequences obtained from one or more samples against a database of reference (i.e., consensus) genome sequence of the same or a similar species. High throughput sequencing (HTS) technologies were introduced in 2006 [6], and the latest iterations of HTS technologies are able to read the genome of a huma...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: IEEE Transactions on Parallel and Distributed Systems
سال: 2013
ISSN: 1045-9219
DOI: 10.1109/tpds.2012.190