7.x-3.2

This release improves the stability of this module substantially through the addition of full automated testing for the genotype matrix and API. Additionally, it includes a number of bug fixes.

With the addition of the automated testing and extensive manual testing on a generic Tripal site containing only the listed dependencies, I feel confident labelling this module as generic. I hope you will find it a useful addition to your Tripal site and would love to hear your experience.

7.x-3.1

Incorporates a number of bug fixes since 7.x-3.0.

Tripal3-compatible Release

This release is the first Tripal3 compatible version for this module. In addition to the genotype matrix we all know and love, there have been a number of TripalFields added to provide greater presence of genotypic data on your Tripal content pages and to provide more intuitive access to the data.

Features

• Extensive configuration allowing for flexiblity in ontology terms used, as well as, colours and wording used in visualizations.
• Multiple Tripal 3 Fields which provide flexible, configurable summaries of genotypic data.
  • Marker/Variant Genotype Summary: a pie chart showing the ratio of alleles recorded per marker.
  • Marker/Variant Flanking Sequence: a FASTA record showing flanking sequence with all known variants indicated via IUPAC codes (useful in marker design).
  • Marker List: provides links to the markers assaying a given variant.
  • Genotype Matrix Quick Link: provides a quick link to a pre-filtered genotype matrix. How it is filtered is dependent on the page it is on:
    • On Marker/Variant pages: restricted to specific variant
    • On Germplasm pages: germplasm is pre-selected
    • On Project pages: project is pre-selected if genus is a property of the project.
• Genotype Matrix search allowing users to extract genotypes for a user-defined set of germplasm. Includes filtering by marker/variant type, variant location, and pairwise polymorphism. Filtering by quality is coming soon.
• Integration of all fields with Tripal 3 web services allowing you to share your genotypic data with other groups.

7.x-2.0-beta1

First release of the 2.x branch of this module. The 2.x branch represents a significant improvement in performance and moves towards being able to handle large genotype datasets. While this is a beta release, it is being used in a production setting.