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News


Version 1.18

We have been releasing smaller patches more often recently, but majority of these updates targeted the internal structure of the system to improve stability and code quality. Since the last version we published an update about (1.8), we have implemented:

  • Complete rewrite of our REST API – see our interactive documentation
  • Speed improvements in page loading times.
  • Small improvements to the UI all across the website.
  • Changes in our admin tools and improved UI for our data-curation team.
  • Fixes to many bugs of various magnitude.

You can visit our GitHub project for a more detailed list of implemented features and bugfixes, or to report an issue yourself.

Version 1.8

Gemma 1.8 is a major new release that includes changes to the software and data, including:

  • We are now much more selective in our choice of experiments to include in coexpression analysis. This means that fewer data sets are available for coexpression, but they are generally of higher quality.
  • The way we store coexpression data has been revised to improve performance and allow more flexible queries.
  • We have re-curated many experimental designs to make them more interpretable and consistent across studies.
  • Most Affymetrix data sets are now reanalyzed from CEL files. We have also introduced many more RNA-seq data sets, which are analyzed from raw reads.
  • We have added new quality controls and many data sets are now batch-corrected. Data sets that lack batch information are among those excluded from some analyses.
  • Neurocarta is now Phenocarta, and has been expanded in gene-disease coverage.
  • There have been numerous bug fixes and improvements to the site.

Much more is planned including more data and features. Please email gemma@chibi.ubc.ca with bug reports, feature requests, or other feedback.

Version 1.7

We are pleased to announce a major new release of Gemma, with numerous new features and improvements, too many to list here. Highlights include:

  • Revamped web interface
  • New differential expression and co-expression interfaces, including new visualizations
  • Vast increases in stability and performance
  • Introduction of Neurocarta, an integrated database of gene-phenotype relations

Please email gemma@chibi.ubc.ca with bug reports, feature requests, or other feedback.