Sara Goodwin | Alignment, Error Correction and Assembly of a Eukaryote Genome скачать в хорошем качестве

Sara Goodwin | Alignment, Error Correction and Assembly of a Eukaryote Genome

Here Sara Goodwin presents her experiences working with the MinION device. She discusses the performance, tools and algorithms available for downstream analysis; including alignment methods and parameters. Her interest in the MinION device is its ability to generate long reads for complex genome assembly. Using her hybrid error correction approach called Nanocorr, she filtered the reads to optimize length and quality and corrected errors in the Oxford Nanopore reads using high identity MiSeq reads collected from the same strain. She generated 28X coverage of the genome with reads greater than 7kb. The process improved the raw nanopore reads with a mean accuracy of approximately 65% to an average per base identity of 97%. The corrected reads were then assembled using the Celera Assembler which now supports reads up to 500kbp. The assembly had an average identity of 99.78% and an N50 value of 585kb. She also highlights the utility of the corrected nanopore assembly by showing that the long reads generated by the MinION are superior to MiSeq short reads in detecting complex genomic elements larger than 1300bp in length. Related publications: Oxford Nanopore Sequencing and de novo Assembly of a Eukaryotic Genome, Nature Biotechnology https://nanoporetech.com/publications... Flongle, GridION, MinION, MinIT, PromethION, and VolTRAX are currently for research use only.