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  • Releases
    • Previous Releases
      • 2025
        • 7.33.0 - Shared BCL Convert Section
        • 7.32.0 - File Preview in Search
        • 7.31.0 - Usage Explorer
        • 7.30.0 - Prep Tab Deprecation
      • 2024
        • 7.29.0 - Improved Analysis Error Reporting
        • 7.28.0 - MiSeq i100 Support
        • 7.27.0 - App Store Upgrade
        • 7.26.0 - Prep Tab Obsolescence Notification
        • 7.25.0 - Project Column in the Analysis Files Tab
        • 7.24.0 - Requeue Improvements
        • 7.23.0 - BaseSpace CLI v1.6.0
        • 7.22.0 - Analysis Autolaunch for NovaSeq X Manual Mode Runs
        • 7.21.0 - Improved Look and Feel
        • 7.20.0 - Analysis List Improvements
        • 7.19.0 - Transfer of NovaSeq X Projects
        • 7.18.0 - Custom Kit Deletion
      • 2023
        • 7.17.0 - Deletion of Biosample Default Projects
        • 7.16.0 - Transfer of NovaSeq X Runs
        • 7.15.0 - Compatibility Filtering in Run Planning
        • 7.14.0 - Native App Engine Update
        • 7.13.0 - Sharing for NovaSeq X Runs and Analyses
        • 7.12.0 - Combined New and Classic Modes
        • 7.11.0 - NovaSeq X Analysis Requeue
        • 7.10.0 - NovaSeq X Analysis Autolaunch Improvements
        • 7.9.0 - Multi-Analysis Run Planning
        • 7.8.0 - Performance Improvements
      • 2022
        • 7.7.0 - NovaSeqX Support
        • 7.6.0 - Custom Configuration Files in Microarray Analysis Setup
        • 7.5.0 - Performance Enhancements
        • 7.4.0 - Run Planning Enhancements
        • 7.3.0 - Improve App Launch Performance
        • 7.2.0 - FastQ Generation and other Bug Fixes
        • 7.1.0 - FastQ Related Fixes and Performance Improvements
        • 7.0.0 - Datasets and Apps Performance
        • 6.19.0 - ICA Integration Enhancements
        • 6.18.0 - ICA Integration with BCL Convert
        • 6.17.0 - Preliminary ICA Integration
      • 2021
        • 6.16.0
        • 6.15.0
        • 6.14.0
        • 6.13.0
        • 6.12.0
        • 6.11.0
        • 6.10.0
        • 6.9.0
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        • 6.5.0
      • 2020
        • 6.4.0
        • 6.3.0
        • 6.2.0
        • 6.1.0
        • 6.0.0
        • 5.46.0
        • 5.45.0
        • 5.44.0
        • 5.43.0
        • 5.42.0
      • 2019
        • 5.41.0
        • 5.40.0
        • 5.39.0
        • 5.38.0
        • 5.37.0
        • 5.36.0
        • 5.35.0
        • 5.34.0
        • 5.33.0
        • 5.32.0
        • 5.31.0
        • 5.30.0
      • 2018
        • 5.29.0
        • 5.28.0
        • 5.27.0
        • 5.26.0
        • 5.25.0
        • 5.24.0
        • 5.23.0
        • 5.22.0
        • 5.21.1
        • 5.21.0
        • 5.20.0
        • 5.19.0
        • 5.18.0
        • 5.17.0
        • 5.16.0
        • 5.15.0
        • 5.14.0
        • 5.13.0
        • 5.12.0
        • 5.11.0
      • 2017
        • 5.10.0
        • 5.9.0
        • 5.8.0
        • 5.7.0
        • 5.6.0
        • 5.5.0
        • 5.4.0
        • 5.3.0
        • 5.2.0
        • 5.1.0
        • 5.0.0
        • 4.27.0
        • 4.26.0
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        • 4.23.0
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        • 4.21.0
        • 4.20.0
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        • 4.18.0
        • 4.17.0
        • 4.16.0
        • 4.15.0
      • 2016
        • 4.14.0
        • 4.13.0
        • 4.12.0
        • 4.11.0
        • 4.10.0
        • 4.9.0
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        • 4.0.4
        • 4.0.3
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        • 4.0.1
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      • 2015
        • 3.23.2
        • 3.23.1
        • 3.23.0 Issues
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        • 3.20.4
        • 3.20.3
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        • 3.19.1
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        • 3.17.1
        • 3.17.0
        • 3.16.2
        • 3.16.0
        • 3.15.2
        • 3.15.1
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  1. Sequence
  2. Plan Runs
  3. Plan a NovaSeq X Series Run

NovaSeq X Series Custom Reference File

To perform a secondary analysis, an Application may require certain types of files, such as:

  • AuxCnvPanelOfNormalsFile - for Enrichment workflow

  • AuxNoiseBaselineFile - for Enrichment workflow

  • BedFile - for Enrichment workflow

  • RnaGeneAnnotationFile - for RNA workflow

Reference files for NovaSeq X analysis are managed from Resources page.

  • Select Resources from the user menu on the top right of Sequence Hub page

  • Select Reference Files tab to see the list of reference files available for use in the run planning.

  • Both standard and custom files are included in the list.

Import a Custom Reference File

  1. Select Import Custom Reference File to upload a custom file.

  2. After file upload is completed,

    • Select the correct File Type. Run Planning tool will associate the new custom file with the Application based on the selected File Type.

    • Select one or more reference genome(s) that should be associated with the file.

    • [Optional] Enter a description for the custom reference file.

  3. Select Save.

Edit a Custom Reference File

To edit a custom reference file's metadata, go to the listing page and select the file. Update the information on the Edit page and save it upon completion.

To update the file content, select Import Custom Reference File from the listing page and upload the new file.

Delete a Custom Reference File

To delete a custom reference file, go to the listing page, and select the delete icon beside the file.

PreviousSet up NovaSeq X Series Secondary AnalysisNextCreate a Custom Index Adapter Kit

Last updated 1 year ago

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