HLA Explore™

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Product Sheets and Technical Documents
Release Notes

Omixon HLA Explore 2.0.0

  • Whole gene analysis support for Statistical Genotyping
  • ABO and MICA genotyping support
  • New allele database structure and format

Omixon HLA Explore 1.7.0

New features and improvements

  • IMGT/HLA 3.29.0.1_5 database version was released:
    • HLA-DRB1*09:01:02 allele extension was removed
    • Erroneous HLA-DRB1*14:13 allele sequence was replaced with record from IMGT/HLA 3.30.0
    • The database was validated with the following software versions: Omixon HLA Twin 2.1.3 CE & RUO, Omixon HLA Twin 2.1.4 CE & RUO and Omixon HLA Twin 2.5.0 RUO. For other software versions, each laboratory is advised to do its own internal validation.
  • Distributed typing service allows for batch analysis and filtering tasks to run in parallel in a client-server environment
  • Existing user accounts cannot be deleted through the UI; administrators have the option to disable and reactivate them whenever needed
  • New export options:
    • JSON export for result files
    • Export result files to PDF/HML with or without LD data
  • Re-Analyse button for result files added
  • File system access rights are now considered on the HLA Typing dashboard: inaccessible folders are marked red and cannot be clicked
  • Pause/resume option for analysis tasks was removed from client-server installations
  • Improved “Targeted Gene List” loading when configuring analysis

Bugfixes

  • Temporary file cleanup fix to avoid losing files still in use
  • Fix for inconsistent display of missing genotype markups
  • Amino acid track fixes for special cases
  • HML export fix: best matching alleles are always exported now
  • Bugs related to result approval were fixed:
    • Commenting on approved results isn't possible any more
    • Result approval buttons work consistently with all precision settings
Omixon HLA Explore 1.4.2

Improvements and bug fixes

  • IMGT/HLA 3.28.0 released
Known limitations
  • Big data QC thresholds are not suitable for all data types
Omixon HLA Explore 1.4.1

Improvements and bug fixes

  • Big data parameters fixed
  • Inconsistent clinical workflow step based filtering fixed
  • Consistent naming convention for extended allele handling
  • Targeted locus list handling fixed in protocols
  • Temp folder is now created by the application if a non-existing folder was specified during installation
  • Null allele postfix no longer gets trimmed in low resolution PDF and HML exports
  • Temporary file cleanup improved
Known limitations
  • Big data QC thresholds are not suitable for all data types

Omixon HLA Explore 1.4.0

New features
  • PacBio analysis (alpha) available
    • Standalone toolset for hdf5 conversion and demultiplexing
    • Built-in analysis pipeline
  • Big data analysis option for whole exome and whole genome data added to Advanced HLA typing wizard.


Improvements and bugfixes

  • Context sensitive guide for the HLA browser
  • Linkage Disequilibrium (LD) improvements
    • Extended LD checks to cover DQB1 and DQA1 in addition to DRB3/4/5
    • Fixed known display issues with DRB3/4/5 results
  • Improved memory settings
    • On first use popup, warning if insufficient memory configured
    • Recommendation for memory settings on installation

Omixon HLA Explore 1.3.0

New features

  • PacBio analysis (alpha) available
    • Standalone toolset for hdf5 conversion and demultiplexing
    • Built-in analysis pipeline
  • Big data analysis option for whole exome and whole genome data added to Advanced HLA typing wizard.

Improvements and bugfixes

  • Context sensitive guide for the HLA browser
  • Linkage Disequilibrium (LD) improvements
    • Extended LD checks to cover DQB1 and DQA1 in addition to DRB3/4/5
    • Fixed known display issues with DRB3/4/5 results
  • Improved memory settings
    • On first use popup warning if insufficient memory configured
    • Recommendation for memory settings on installation

Omixon HLA Explore 1.2.0

Improvements and bugfixes

  • Big data filter option fixed
  • New browser options
    • Amino acid track added to browser
    • Fragment visualization in the genome browser
  • Comment history, improved commenting
  • Locus selection in advanced genotyping wizard, improved default targeted locus set selection
  • Improved assignment functions
  • Reduced display length of sample and result names, better representation of duplicate analyses
  • HML and PDF export improvements
  • Improved support for clinical workflows
  • Separate QC metrics for key and non-key exons, QC metrics table reorganized
  • Precision reduction in main results table
  • Several other minor bugfixes and improvements

Known limitations

  • LD based zygosity detection for DRB345 and markups are not always correct

Omixon HLA Explore 1.0.0.3

  • Linkage disequilibrium based result interpretation and annotation improvements
  • Server automation bug fix to create alignments during analysis
  • Several other small bug fixes

Omixon HLA Explore 1.0.0.2

  • Linkage disequilibrium based result interpretation and annotation improvements
  • Server automation stability and performance improvements
  • Several other small bug fixes

Omixon HLA Explore 1.0.0.1

  • Linkage disequilibrium based result interpretation and annotation fixes
  • Customization of the reporting-center-context attribute in the HML export
  • Option to add custom hemizygous genotype
  • Fixed empty result presentation for loci without data
  • Fixed product name in the installer file name
  • Increased maximum memory setup limit to 512GB
  • Several other small bug fixes

Omixon HLA Explore 1.0.0.0

  • Analysis improvements
    • Integrated whole genome (WGS) and whole exome (WES) data filtering
  • Reporting improvements
  • Usability improvements
    • Notification about new IMGT/HLA database availability
    • Higher quality sequence alignments in the genome browser
  • Time based licensing scheme
    • Data type modules
      • Base module for targeted HLA data
      • Big data module for whole genome (WGS) and whole exome (WES) data

    • Deployment specific licenses
      • Desktop
      • Server

MyHolotype / Identification Required

 

Please sign up for MyHolotype to get more information about:

- Documentations (Handbook and User Guide)

- Data Sets

Data Sets for Big Data module (WES and WGS)

A new data set is coming soon.

IMGT HLA database bundles

New format for versions from/after Twin 3.0.0 and Explore 2.0.0

Old format for versions before Twin 3.0.0 and Explore 2.0.0