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SquiggleKit: a toolkit for manipulating nanopore signal data

Abstract

The management of raw nanopore sequencing data poses a challenge that must be overcome to facilitate the creation of new bioinformatics algorithms predicated on signal analysis. SquiggleKit is a toolkit for manipulating and interrogating nanopore data that simplifies file handling, data extraction, visualization and signal processing.SquiggleKit is cross platform and freely available from GitHub at (https://github.com/Psy-Fer/SquiggleKit). Detailed documentation can be found at (https://psy-fer.github.io/SquiggleKitDocs/). All tools have been designed to operate in python 2.7+, with minimal additional libraries.Supplementary data are available at Bioinformatics online.

Type Journal
ISBN 1367-4803
Authors Ferguson, James M; Smith, Martin A
Responsible Garvan Author James Ferguson
Publisher Name Bioinformatics
Published Date 2019-12-01
Published Volume 35
Published Issue 24
Published Pages 5372-5373
Status Published in-print
DOI 10.1093/bioinformatics/btz586
URL link to publisher's version https://www.ncbi.nlm.nih.gov/pubmed/31332428