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NanoPlot specifications

Information


Unique identifier OMICS_20267
Name NanoPlot
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Input data Some reads or alignments.
Input format fastq, bam
Output data Some multiple plots and a statistical summary.
Biological technology Pacific Biosciences, Oxford Nanopore
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License GNU General Public License version 3.0
Computer skills Medium
Version 1.0.0
Stability Stable
Requirements
matplotlib, pysam, pandas, numpy, seaborn, biopython
Maintained Yes

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Versioning


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Documentation


Maintainer


  • person_outline wdecoster <>

Information


Unique identifier OMICS_20267
Name NanoPlot
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 1.13.0
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline wdecoster <>

Publication for NanoPlot

NanoPlot citation

library_books

Community led comparative genomic and phenotypic analysis of the aquaculture pathogen Pseudomonas baetica a390T sequenced by Ion semiconductor and Nanopore technologies

2018
PMCID: 5909648
PMID: 29579234
DOI: 10.1093/femsle/fny069

[…] nanopore reads was performed with the software albacore v2.1.3 from ont, and the barcodes were removed using porechop. read length distribution and quality of the nanopore reads was assessed using nanoplot., the genome was first assembled with spades, version 3.11.1 using default parameters (bankevich et al.) using ion pgm reads only, then with unicycler, version v0.4.3 (wick et al.) also […]


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NanoPlot institution(s)
Neurodegenerative Brain Diseases Group, Center for Molecular Neurology, VIB & University of Antwerp, Antwerp, Belgium; Neuromics Support Facility, Center for Molecular Neurology, VIB & Univ of Antwerp, Antwerp, Belgium; Dept of Biomolecular Engineering and Bioinformatics, University California Santa Cruz, Santa Cruz, CA, USA

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