Annotation

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Supporting annotation of biological data is a central goal of GMOD. Annotation can be done computationally or manually using or by dedicated curatorial staff.

This page is about creating annotations. GMOD also has a number of solutions for visualizing annotations.

Genome Annotation

Manual Genome Annotation

  • Apollo is the manual genome annotation tool of choice for GMOD users.

Computational Genome Annotation

  • MAKER is a pipeline for annotating eukayotic genomic data.
  • DIYA is a (soon to be added) pipeline for annotation prokaryotic genomic data.
  • Ergatis is a web-based utility for creating and running reusable computational analysis pipelines.
  • Galaxy allows users to search remote resources, combine data from independent queries, and visualize/save the results.
  • Genome grid project is a package of genome data analysis with methods, protocols, and documentation.

Publication Annotation

  • Textpresso is a text mining package for biological literature.
  • PubSearch is a web-based literature curation tool to allow curators to search and annotate genes to keywords from articles.