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Annotate Genome/Assembly with RASTtk - v1.073
RAST_SDK

v.1.8.1

Launch

Annotate or re-annotate genome/assembly using RASTtk (Rapid Annotations using Subsystems Technology toolkit).

This KBase annotation App (Annotate Genome/Assembly) uses components from the RAST (Rapid Annotations using Subsystems Technology) toolkit [1,2,3] to annotate a prokaryotic genome or to update the annotations of a genome.

The release versions of the RASTtk component services used in this app are:

The Annotate Genome/Assembly App takes a KBase Genome or Assembly object as input and allows users to annotate or re-annotate the assembly/genome. This will make the annotations consistent with other KBase assemblies/genomes and prepare the them for further analysis by other KBase Apps, especially the Metabolic Modeling Apps.

The Results

GUI Output
The GUI output currently consists of three tabs. The "Overview" tab provides basic information on the annotation job, the "Browse Features" tab allows the user to scroll through the features that were called, and the "Browse Contigs" tab provides information on the contigs in the genome. Users can sort on the various types of features. Note that some features will overlap (e.g., "prophage" and "CDS").

Additional Information
For more information on the steps of the default RASTtk pipeline please refer to our publication on this (publication forthcoming). For more detailed tutorial information and to explore the additional functionality of RASTtk not currently available in the Narrative interface, please refer to http://tutorial.theseed.org.

Team members who developed & deployed algorithm in KBase: Thomas Brettin, James Davis, Terry Disz, Robert Edwards, Chris Henry, Gary Olsen, Robert Olson, Ross Overbeek, Bruce Parrello, Gordon Pusch, Roman Sutormin, and Fangfang Xia. For questions, please contact us.

The authors of RAST request that if you use the results of this annotation in your work, please cite the first three listed publications:

Related Publications


App Specification:

https://github.com/kbaseapps/RAST_SDK/tree/3f29a5d57b362000c4aa9f6a71f3392ea453539e/ui/narrative/methods/annotate_genome_assembly

Module Commit: 3f29a5d57b362000c4aa9f6a71f3392ea453539e