Illumina Experiment Manager Software Release Notes Part Number: 15070245 Effective Date: 10/23/2015 Page 1 of 2 Illumina® Experiment Manager (IEM) Software Release Notes For MiSeq®, HiSeq®, NextSeq®, and NeoPrep™ Systems October 22, 2015 Revision History Revision Date Description of Change 00 June 22, 2015 Initial Version 01 Oct 16, 2015 Product name update FOR RESEARCH USE ONLY © 2013 Illumina, Inc. All rights reserved. Illumina, IlluminaDx, BaseSpace, BeadArray, BeadXpress, cBot, CSPro, DASL, DesignStudio, Eco, GAIIx, Genetic Energy, Genome Analyzer, GenomeStudio, GoldenGate, HiScan, HiSeq, Infinium, iSelect, MiSeq, Nextera, NuPCR, SeqMonitor, Solexa, TruSeq, VeraCode, the pumpkin orange color, and the Genetic Energy streaming bases design are trademarks or registered trademarks of Illumina, Inc. All other brands and names contained herein are the property of their respective owners. [Master copyright info is on Sharepoint – this may need to be updated. Under Legal trademarks policy. This would be a final step in review prior to release] Illumina Experiment Manager Software Release Notes Part Number: 15070245 Revision: A Effective Date: 10/23/2015 Page 2 of 2 Introduction These Release Notes detail the key changes to software components for the Illumina Experiment Manager (IEM) between the specific versions listed in the table. Software Application Prior Version New Version Illumina Experiment Manager 1.9 1.11 This update is required to run samples prepared with the TruSight ® Tumor 15, or for use on the HiSeq 3000/HiSeq 4000 when utilizing dual index, single read configurations. If you are upgrading from a version before v1.9, review the v1.9 release notes for a list of features and bug fixes introduced in that version. A new TruSight®Tumor 15 quick reference card was created to include new features in this release. I. Illumina Experiment Manager 1.11 NEW FEATURES: Added TruSight® Tumor 15 as a new workflow for the MiSeq sequencer. Enabled dual-index, single read sample sheet configurations on the HiSeq 3000/4000. Added BWA-backtrack setting to allow selection of the previous version of the BWA aligner (v0.6.1) in the following workflows: o Enrichment o Library QC o PCR Amplicon o Small Genome Resequencing Note: this setting only applies to MiSeq Reporter v2.6 (and later) workflows, which use the newer BWA aligner (BWA-MEM, v0.7.9a). DEFECT REPAIRS: Fixed a bug that prevented users from selecting a Genomes folder due to back/forward slashes used in the entry. Renamed all references of “Sample Prep” to “Library Prep”. KNOWN ISSUES: Editing of HiSeq sample sheets, within IEM, has been disabled. To install IEM v1.11, previous versions of IEM must first be uninstalled. Before installing, click Start Menu, Control Panel, and then Programs and Features to uninstall any prior version of IEM. Note: If IEM v1.6 or higher is already installed, the user receives a warning before installation of IEM v1.11 can proceed. Earlier versions of IEM (1.5 or earlier) do not trigger this warning.
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