Baker, Ethan Alexander García, Goodwin, Sara, McCombie, W Richard, Mendivil Ramos, Olivia (September 2016) SiLiCO: A Simulator of Long Read Sequencing in PacBio and Oxford Nanopore. bioRxiv. ISSN 2692-8205 (Submitted)
Abstract
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 reproducible 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 sequencing platforms.
| Item Type: | Paper |
|---|---|
| Subjects: | Investigative techniques and equipment Investigative techniques and equipment > assays |
| CSHL Authors: | |
| Communities: | CSHL labs > McCombie lab |
| SWORD Depositor: | CSHL Elements |
| Depositing User: | CSHL Elements |
| Date: | 22 September 2016 |
| Date Deposited: | 24 Mar 2026 19:12 |
| Last Modified: | 24 Mar 2026 19:12 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/42114 |
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