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Pub. No.   Rev.  A.0

29 April  2021  6:53:38.585



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

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Translated from English, from Publication Number MAN002477 Revision A.0.

Revision history: Pub. No. MAN0024777

Revision

Date

Description

A.0

April 30

Updates made for new software features and improvements, and documentation updates are as follows:
  • Replaced all instances of internal server names with <server name> in Ion Reporter™ Software web services API section.
  • Added information about Java™ 11 requirement for IonReporterUploader command-line utility.
  • Updated predefined filter name from "Hotspot" to "Hotspot position overlap".
  • Added information about normalized read counts threshold for RNA exon variants
  • Added new information about detection of non-targeted fusions in Fusion detection method section
  • Added information about key-value pairs "NT_FUSION_IN_FRAME", "NT_FUSION_DRIVER_INVOLVED", "NT_FUSION_SECONDARY", and other updates to the Oncomine Variant Annotator plugin criteria appendix.
  • Updated "Get current results TSV file" section.
  • Removed Tmap Realignment Enable Flag parameter from Read mapping parameters section.
  • Change name of name of "% Frequency column" to "Allele Frequency %" in "Display different views of analysis results" and "Create and view a time series graph".
  • Added information about the Tmap Mapped Files Enable Re-map parameter in the Upload a BAM file to create a sample or samples section.
  • Removed extra content from Returns section of "Download a BAM file."
  • Added information for new Phred QUAL score filter.
  • Add new images in "View BRCA analysis results" and "BRCA Report" section.
  • Added information on how to replace the image in the footer of reports generated by the software.
  • Added information about gnomAD (genome Aggregation Database), which is the successor of the ExAC database, and is now included in Ion Reporter™ Software as an annotation source and a filter that can be added to custom filter chains.
  • Update to Oncomine™ Extended filter chain description.
  • Added information to not start names with periods (.) in "What special characters are allowed in names?" section.

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