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  • Apps
  • Inputs
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  • Tutorial Webinar
  • SFA Collaboration Page

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  1. Community Developed Workflows and Tools

Functional Annotation

These apps allow users to import and utilize external genome annotations that can be combined with annotations created by KBase apps such as DRAM, Prokka, or RASTtk.

PreviousCommunity Developed Workflows and ToolsNextFunctional and Taxonomic Profiling of MAGs

Last updated 6 months ago

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Apps

  • Import Annotations From Staging: Enables upload of third-party annotations like EC and KEGG into KBase.

  • Bulk Import Annotations From Staging: Enables upload of third-party annotations to add to an existing genome into KBase in bulk.

  • Compare Metabolic Annotations: Compare and contrast metabolic annotations from multiple sources.

  • Merge Metabolic Annotations: Generate a consensus annotation by combining multiple annotation sources.

Inputs

These apps take Genomes with annotations as input. See Assembling & Annotation Microbial Genomes for more on annotating genomes.

Narratives

  • Importing annotation sources for metabolic modeling – provides an example using a Streptomyces coelicolor strain A3(2) and annotations created in KBase and 3rd party tools.

    • Created and made available by Patrik D'haeseleer of Lawrence Livermore National Laboratory.

  • Microbial Genomics in KBase: Drafting Isolate Genomes and Microbial Metabolic Model Reconstruction and Analysis – provide guidance through related workflows.

Tutorial Webinar

SFA Collaboration Page

These apps were developed as part of the Biofuels and Bioenergy SFA. To learn more about this collaboration, see: https://www.kbase.us/research/stuart-sfa/.

Tutorial webinar presented by Patrik D'haeseleer of Lawrence Livermore National Laboratory