GPRStudio: an extensible cross-platform GPR signal processing tool

SummaryThe management of raw nanopore sequencing data poses a challenge that must be overcome to accelerate the development of new bioinformatics algorithms predicated on signal analysis. SquiggleKit is a toolkit for manipulating and interrogating nanopore data that simplifies file handling, data extraction, visualisation, and signal processing. Its modular tools can be used to reduce file numbers and memory footprint, identify poly-A tails, target barcodes, adapters, and find nucleotide sequence motifs in raw nanopore signal, amongst other applications. SquiggleKit serves as a bioinformatics portal into signal space, for novice and experienced users alike. It is comprehensively documented, simple to use, cross-platform compatible and freely available from (https://github.com/Psy-Fer/SquiggleKit).

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SquiggleKit: a toolkit for manipulating nanopore signal data

Bioinformatics ◽

10.1093/bioinformatics/btz586 ◽

2019 ◽

Cited By ~ 2

Author(s):

James M Ferguson ◽

Martin A Smith

Keyword(s):

Signal Processing ◽

Signal Analysis ◽

Data Extraction ◽

Supplementary Information ◽

Nanopore Sequencing ◽

Supplementary Data ◽

Sequencing Data ◽

Cross Platform ◽

The Creation

Abstract Summary 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. Availability and implementation 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 information Supplementary data are available at Bioinformatics online.

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The Research of a new Software Framework for cross-platform development Field

MATEC Web of Conferences ◽

10.1051/matecconf/201823203044 ◽

2018 ◽

Vol 232 ◽

pp. 03044

Author(s):

Wenfeng Lin ◽

Gaoxuan Zhang ◽

Zhoucan He ◽

Xinyu Liu ◽

Wenchao Dang

Keyword(s):

Signal Processing ◽

Data Processing ◽

User Interfaces ◽

Software Reuse ◽

Engineering Application ◽

Software Framework ◽

Data Generation ◽

Important Approach ◽

Cross Platform ◽

Development Group

Software framework is a very important approach to realize software reuse and improve the software quality. In this paper, we firstly introduce a new software framework named QFusion to complete cross-platform desktop software development, which is based on function plug-in module. The QFusion framework can realize information interaction by use of event bus, data bus and service, which can separate the graphical user interfaces (GUI) from data processing completely. Based on the framework-related develop process, the complexity is largely reduced. Secondly, we give the practice of QFusion framework in modern military field to implement the feature extraction and data processing algorithm. Benefit from the QFusion framework, the signal processing task is completed by the collaboration among three groups, including data generation plug-in development group, data processing plug-in development group and GUI plug-in development group, respectively. Finally, the signal processing results are presented to prove the validity of the QFusion framework, which lays a solid foundation for solving the practical problem in engineering application.

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