Highly accurate and sensitive short read aligner
نویسندگان
چکیده
منابع مشابه
SOAP3-dp: Fast, Accurate and Sensitive GPU-Based Short Read Aligner
To tackle the exponentially increasing throughput of Next-Generation Sequencing (NGS), most of the existing short-read aligners can be configured to favor speed in trade of accuracy and sensitivity. SOAP3-dp, through leveraging the computational power of both CPU and GPU with optimized algorithms, delivers high speed and sensitivity simultaneously. Compared with widely adopted aligners includin...
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Recently the topic of computational pan-genomics has gained increasing attention, and particularly the problem of moving from a single-reference paradigm to a pan-genomic one. Perhaps the simplest way to represent a pan-genome is to represent it as a set of sequences. While indexing highly repetitive collections has been intensively studied in the computer science community, the research has fo...
متن کاملrNA: a fast and accurate short reads numerical aligner
SUMMARY The advent of high-throughput sequencers (HTS) introduced the need of new tools in order to analyse the large amount of data that those machines are able to produce. The mandatory first step for a wide range of analyses is the alignment of the sequences against a reference genome. We present a major update to our rNA (randomized Numerical Aligner) tool. The main feature of rNA is the fa...
متن کاملPairagon: a highly accurate, HMM-based cDNA-to-genome aligner
MOTIVATION The most accurate way to determine the intron-exon structures in a genome is to align spliced cDNA sequences to the genome. Thus, cDNA-to-genome alignment programs are a key component of most annotation pipelines. The scoring system used to choose the best alignment is a primary determinant of alignment accuracy, while heuristics that prevent consideration of certain alignments are a...
متن کاملCUSHAW3: Sensitive and Accurate Base-Space and Color-Space Short-Read Alignment with Hybrid Seeding
The majority of next-generation sequencing short-reads can be properly aligned by leading aligners at high speed. However, the alignment quality can still be further improved, since usually not all reads can be correctly aligned to large genomes, such as the human genome, even for simulated data. Moreover, even slight improvements in this area are important but challenging, and usually require ...
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ژورنال
عنوان ژورنال: TURKISH JOURNAL OF ELECTRICAL ENGINEERING & COMPUTER SCIENCES
سال: 2018
ISSN: 1303-6203,1300-0632
DOI: 10.3906/elk-1703-251