Software Release Notes

2025 March 31: ICM v0.5

New Features & Enhancements

• Support for Illumina Multiomic Assays

  • Illumina Protein Prep

  • Illumina Single Cell 3’ RNA Prep

  • Illumina Spatial Transcriptomics

  • Illumina DRAGEN RNA (bulk)

• Pre-configured & Custom Analysis Workflows

  • Default Workflows (Pre-configured)

    • Proteomics: Results in PCA and hierarchical clustering heatmap.

    • Single-cell Transcriptomics: Results in PCA and UMAP visualizations.

    • Spatial Transcriptomics: Results in spatial map with transcript overlay; graph-based clusters plotted on a UMAP and pie chart.

    • Default workflows are automatically initiated for individual single-cell or spatial samples added to an ICM study.

  • Custom Workflows (User-defined parameters)

    • Available for all Illumina multiomic assay types.

    • Includes all default analysis options and additional analysis workflows:

      • Differential Expression

      • Pathway Analysis

      • Gene Set Enrichment

• Scalability & Performance Improvements

  • Up to 10x performance improvement in data import and analysis processing.

  • Single-cell RNA analyses can now be performed with multiple samples simultaneously.

  • New samples can be automatically imported into ICM when they are generated as outputs of a DRAGEN secondary analysis pipeline in a linked ICA project.

• UI & UX Enhancements

  • Simplified UI/UX to improve overall usability, reduce complexity, and streamline user flows:

  • Reworked and consolidated UI components for improved consistency and user experience.

  • Improved information architecture for easier navigation.

Bug Fixes & Technical Debt

• Resolved known issues and made improvements related to technical debt.

Known Issues

• Intermittent failures with import and analysis tasks.

Known Limitations

• Non-Illumina assay data is not supported in ICM at this time, including proteomics, single-cell, and spatial.