Accurate indel prediction using paired-end short reads
نویسندگان
چکیده
منابع مشابه
PE-Assembler: de novo assembler using short paired-end reads
MOTIVATION Many de novo genome assemblers have been proposed recently. The basis for most existing methods relies on the de bruijn graph: a complex graph structure that attempts to encompass the entire genome. Such graphs can be prohibitively large, may fail to capture subtle information and is difficult to be parallelized. RESULT We present a method that eschews the traditional graph-based a...
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SUMMARY We present a program to improve haplotype reconstruction by incorporating information from paired-end reads, and demonstrate its utility on simulated data. We find that given a fixed coverage, longer reads (implying fewer of them) are preferable. AVAILABILITY The executable and user manual can be freely downloaded from ftp://ftp.sanger.ac.uk/pub/zn1/HI.
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Consensus between independent reads improves the accuracy of genome and transcriptome analyses, however lack of consensus between very similar sequences in metagenomic studies can and often does represent natural variation of biological significance. The common use of machine-assigned quality scores on next generation platforms does not necessarily correlate with accuracy. Here, we describe usi...
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ژورنال
عنوان ژورنال: BMC Genomics
سال: 2013
ISSN: 1471-2164
DOI: 10.1186/1471-2164-14-132