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Plasmid detection software tools | De novo genome sequencing data analysis

Plasmids have important roles in antibiotic resistance and in affecting production of metabolites used in industrial and agricultural applications. However, their extraction through deep sequencing remains challenging, in spite of rapid drops in…
BLAST
Web
Desktop

BLAST Basic Local Alignment Search Tool

Allows to align query sequences against those present in a selected target…

Allows to align query sequences against those present in a selected target database. BLAST is a suite of programs, provided by NCBI, which can be used to quickly search a sequence database for…

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Plasmid…
Desktop

Plasmid Profiler

Provides comparative plasmid content analysis. Plasmid Profiler is a…

Provides comparative plasmid content analysis. Plasmid Profiler is a comparative pipeline for visualization of plasmid content in whole genome sequencing (WGS) data from bacterial isolates. It…

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plasmidSPAdes
Desktop

plasmidSPAdes

A software tool for assembling plasmids from whole genome sequencing data.…

A software tool for assembling plasmids from whole genome sequencing data. plasmidSPAdes utilizes SPAdes for transforming the de Bruijn graph into the assembly graph and finds a subgraph of the…

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PLACNET
Desktop
Web

PLACNET PLAsmid Constellation NETwork

Identifies, visualizes and analyzes plasmids in WGS projects by creating a…

Identifies, visualizes and analyzes plasmids in WGS projects by creating a network of contig interactions, thus allowing comprehensive plasmid analysis within WGS datasets. PLACNET uses three types…

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Selenzyme
Web

Selenzyme

Assists in heterologous candidate enzymes selection. Selenzyme is an online…

Assists in heterologous candidate enzymes selection. Selenzyme is an online tool which query a target reaction. It can accept multiple queries from any other web-based application. It provides enzyme…

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PlasmidTron
Desktop

PlasmidTron

Identifies sequence representing mobile genetic elements (MGEs). PlasmidTron is…

Identifies sequence representing mobile genetic elements (MGEs). PlasmidTron is a tool that utilizes the phenotypic data such as antibiograms, virulence factors, or geographic information. It can be…

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Recycler
Desktop

Recycler

A tool designed for extracting circular sequences from de novo assembly graphs.…

A tool designed for extracting circular sequences from de novo assembly graphs. Recycler can be applied on isolate as well as metagenome and plasmidome data. The circular sequences it outputs may be…

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PlasmidFinder
Web

PlasmidFinder

Identifies plasmids in total or partial sequenced isolates of bacteria.…

Identifies plasmids in total or partial sequenced isolates of bacteria. PlasmidFinder can be used for replicon sequence analysis of raw, contig group, or completely assembled and closed plasmid…

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