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Pub. No. MAN0018031  Rev.  B.0

November  13 2019  1:42:18.734



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The information in this guide is subject to change without notice.

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Translated from the English Publication Number MAN0018031 Rev. B.0.

Revision history: Pub. No. MAN0018031

Revision

Date

Description

B.0

November 7, 2019

  • New topics:

    • Sort read coverage tracks by variant

    • Adjust IRGV BAM tracks

    • Change Y axis height in Whole Genome data visualization

    • Visualization of triploid samples

  • Updates to the following topics:

    • Visualize variants in analysis run AmpliSeqHD analysis workflow

    • Set IRGV preferences

    • Custom BED file causes an error

    • Create an analysis workflow that contains a copy number baseline

    • View the Mutation Load statistics

    • Locus View versus Allele View of variants

    • Download detailed analysis logs

    • Gene symbol filter

    • GRCh38 and hg19 human reference genomes

A.0

September 7, 2019

  • New features:

    • Sequence Variant Baseline creation

    • Audits of user activities, and changes made to software

    • Add an electronic signatures to reports

    • QC Metrics included in Final Report template

    • Molecular coverage analysis metrics included in QC Reports

    • Coverage analysis metrics included in QC Reports

    • Updates to administrative policies for system access password policies

    • Updates to information about transcript sets

    • New classification terms for variants

    • Notes can be added to completed analyses

    • New sample attributes: Mouse, Population, Sample Collection date and Sample Collection date

    • New API call: Get current results TSV

    • Updates to the Oncomine™ Variant Annotator plugin

    • Ability to upload list of genes for use with filter chains

    • New predefined filter chain for Extended Oncomine™ results

    • Tumor Mutational Burden (TMB) improvements

    • Parameters for MicroSatelliteInstability (MSI) detection to accommodate assays and analysis workflows to release after Ion Reporter™ Software 5.12

    • Immune Repertoire—Haplotype attribute and algorithm updates for Immune Repertoire to allow adverse events to be predicted. New plots added to Immune Repertoire visualizations.

    • Enhanced ability to add visualized content to Final Reports and Final Report templates

    • Updates to 16S Metagenomics workflow—allows uploading of custom databases, use of different filter settings and parameters for one or more additional databases

  • Updates to BRCA workflows and visualizations: LongDel column added to BRCA Report, allows use of alternate transcript annotation for BRCA1 in Exon Deletion, improvements to BRCA graphics and visualizations.

  • Sections rewritten, enhanced, updated, and improved:

    • Updates to name change from "Ion Reporter™ Software on Thermo Fisher Cloud" to "Ion Reporter™ Software on Connect"

    • Import and Manage Samples

    • Manage analysis workflows

    • Analyses

    • Visualize analysis results with Ion Reporter™ Software

    • Create and view reports

    • Filters and Filter Chains

    • Appendix added for the Oncomine™ Variant Annotator plugin

    • Administer Ion Reporter™ Software

    • Fusions appendix

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