July 7, 2019  |  

SiLiCO: A simulator of long read sequencing in PacBio and Oxford Nanopore

Authors: Baker, Ethan Alexander Garcia and Goodwin, Sara and McCombie, W. Richard and Mendivil Ramos, Olivia

Long read sequencing platforms, which include the widely used Pacific Biosciences (PacBio) platform and the emerging Oxford Nanopore platform, aim to produce sequence fragments in excess of 15-20 kilobases, and have proved advantageous in the identification of structural variants and easing genome assembly. However, long read sequencing remains relatively expensive and error prone, and failed sequencing runs represent a significant problem for genomics core facilities. To quantitatively assess the underlying mechanics of sequencing failure, it is essential to have highly re-producible and controllable reference data sets to which sequencing results can be compared. Here, we present SiLiCO, the first in silico simulation tool to generate standardized sequencing results from both of the leading long read sequenc-ing platforms.

Journal: BioRxiv
DOI: 10.1101/076901
Year: 2016

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