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MOB-Recon (version 3.0.3+galaxy0)
FASTA file with contig(s)
Advanced parameters
Advanced parameters 0

Syntax

This tool reconstructs individual plasmid sequences from draft genome assemblies using the plasmid reference databases.

For more information please visit https://github.com/phac-nml/mob-suite/.

Workflow

This preliminary "Mobilome and Resistome Analysis Workflow" linking mob_recon with staramr provides reports on mobilome and resistome for a given isolate given a draft genome assembly. The workflow is located in Shared Data --> Workflows --> Mobilome and Resistome Analysis Workflow (MOB-Recon and STARAMR). The workflow file can also be manually downloaded from https://raw.githubusercontent.com/phac-nml/galaxy_tools/master/tools/mob_suite/workflows/AMRworkflow_STARAMR.ga.


Input:

A FASTA file with a single or multiple contigs (e.g. a draft genome assembly):

Output:

Tab-delimited report listing information for each input contig on its cluster number, possible replicon, relaxase, and repetitive elements types, etc. Refer to https://github.com/phac-nml/mob-suite#mob-recon-contig-report-format for the description of each column.

Note: Plasmid sequences will not be output if none are found. Some plasmid could be intergrated into a chromosome.