Local Run Manager Training

  • Title

    DATE/LENGTH


  • Local Run Manager v2

    This course shows you how to get started using the Local Run Manager v2 software to set up your sequencing runs and view analysis results.

    Languages: French, Italian, German, SpanishChinese (Simplified)

    20 min


  • MiSeq: How to Start a Run

    After completing this course you will be able to identify the MiSeq run setup options, describe how to prepare the MiSeq reagent cartridge and load libraries, and list the steps to start a sequencing run with MiSeq Control Software (MCS).

    20 min


  • NextSeq: How to Start a Run

    By the end of this course, you will be able to: identify the steps to start a run on the NextSeq, describe how to prepare the reagent cartridge, and start a sequencing run using NCS.

    20 min


  • iSeq 100: How to Start a Run

    This course introduces the steps to start an iSeq sequencing run, prepare the consumables, and use the iSeq Control Software.

    Languages: French, Italian, German, SpanishChinese (Simplified)

    20 min


  • BaseSpace Sequence Hub: FASTQ Processing Tools for Data Analysis

    Recorded Webinar (August 2020) | FASTQ files store biological sequence and quality information and are key for downstream data analysis pipelines. Several steps are necessary during FASTQ generation to ensure optimal data analysis. This webinar is targeted at new and intermediate users including biologists intending to understand output of basic bioinformatics tools used for processing FASTQs. We will focus on BaseSpace Sequence Hub tools such as FASTQC and FASTQ toolkit*. 

    We will cover the following topics: What is a FASTQ file; An overview of Illumina FASTQ generation tools; FASTQ processing such as adapter trimming, masking, quality trimming, read stitching etc; and Highlight the differences between Illumina run performance metrics and output generated by third party tools such as FASTQC.

    *BaseSpace Labs Apps are developed using an accelerated development process in order to make them available to BaseSpace users faster than conventional Illumina Apps. Illumina may provide support for BaseSpace labs Apps at its sole discretion. BaseSpace Labs Apps are provided AS-IS without any warranty of any kind. BaseSpace Labs Apps are used at the user’s sole risk. Illumina is not responsible for any loss of data, incorrect results, or any costs, liabilities, or damages that may result from the use of a BaseSpace Labs App.


  • Local Run Manager 2.0 (Research Use Only): Introduction - On- and Off-Instrument

    Recorded Webinar (December 2019) | Local Run Manager is a Windows-based software for Illumina benchtop sequencing data that includes local analysis options as well as run and user management. This webinar targets new and intermediate users of the software. It will provide an overview of the Research Use Only (RUO) version of Local Run Manager 2, including the off-instrument version and the versions bundled with the latest MiSeq Control Software, iSeq Control Software, and NextSeq Control Software. This webinar does not cover the Dx versions of the software. We will cover the following topics: Features of Local Run Manager 2, available versions and analysis options, how to set up runs and analyze data, interaction with on-instrument control software, and comparison to other Illumina analysis software.