For users of DRAGEN 4.2 Amplicon via the DRAGEN server or ICA with manual analysis, Pillar libraries have additional recommended settings. Contact Illumina Technical Support for more information.
For Pillar PiVAT secondary analysis, contact Illumina Technical Support for hardware specifications and installation information.
Instructions for using the AutoLoader 2.x to automatically load and unload BeadChip carriers into an iScan Reader.
Oct 18, 2023
< 1 MB
Oct 22, 2020
Instructions for sequencing with custom primers on the NextSeq 500 and NextSeq 550 Systems.
< 1 MB
Mar 8, 2020
Comprehensive information on the Infinium EX Methylation Assay, including a detailed protocol
Dec 2, 2025
May 19, 2026
Product documentation for the Infinium Amplification System.
May 28, 2024
Instructions for using Beeline Software v1.0 to reduce total experimental data size and analysis time.
< 1 MB
Jul 1, 2010
System overview and instructions for operating and maintaining the HiSeq 1500.
1 MB
Aug 30, 2019
4 MB
Jun 1, 2011
The Vortex Incubator User Guide for use with VeraCode assays.
3 MB
May 1, 2008
Instructions for implementing TruSight Oncology Comprehensive.
May 19, 2026
< 1 MB
Aug 18, 2026
Complete product documentation for Infinium RoMa (IAPS with ILASS).
Jun 17, 2025
An overview of the Long Read Sequencing Service informatics pipeline deliverables and algorithms.
1 MB
Feb 4, 2014
May 19, 2026
Comprehensive information on the Illumina and GenoScreen Deeplex® Myc-TB Combo Kit, including a detailed protocol.
21 MB
Oct 6, 2026
Instructions for using the bcl2fastq Conversion Software v1.8.4 to demultiplex data and convert BCL files.
< 1 MB
Apr 19, 2013
3 MB
Jan 19, 2016
Jul 31, 2023
May 19, 2026
< 1 MB
Jul 9, 2026
Summary of workflow requirements and estimated scan times for GoldenGate assays.
Online help for the BaseSpace RNA Amplicon v2.0 App.
Product documentation for the Illumina Complete Long Read Prep Kit.
Apr 24, 2023
Instructions for using Illumina LIMS to manage projects and tasks, generate reports, and track history.
2 MB
Feb 1, 2011
Instructions for sequencing with custom primers on any HiSeq system (except the HiSeq X System).
< 1 MB
Nov 3, 2017
System overview and instructions for operating and maintaining the HiSeq 1000.
2 MB
May 2, 2018
Summary of workflow requirements and estimated scan times for Infinium BeadChips.
< 1 MB
Oct 16, 2019
May 19, 2026
Sep 3, 2025
Comprehensive information on the MiSeq Operating Software (MOS) v2, including a detailed protocol.
An overview of the FastTrack Phasing Informatics Pipeline 1.1.0 deliverables and phasing algorithm.
1 MB
Oct 5, 2015
May 19, 2026
Instructions for using HiSeq Analysis Software to process sequencing results generated by HiSeq sequencers.
< 1 MB
May 29, 2013
May 19, 2026
Jul 31, 2023
Jul 31, 2023
Jul 31, 2023
Sep 20, 2024
Instructions for performing the Infinium II Two-Sample assay.
Comprehensive information on the Whole Genome Sequencing data package.
2 MB
Jan 19, 2016
May 19, 2026
Instructions for using custom primers for sequencing on the MiSeq System.
< 1 MB
Mar 13, 2016
< 1 MB
Oct 13, 2026
Instructions for performing the MicroRNA GoldenGate Methylation and DASL Gene Expression assays.
May 19, 2026
Instructions for using Beeline Software v2.0 for high-throughput genotyping analysis.
< 1 MB
Feb 14, 2017
Product documentation for the DRAGEN Array software.
Product documentation for DRAGEN 5-Base software.
Aug 22, 2025
Jun 1, 2026
Jun 1, 2026
Comprehensive information on the MiSeq Operating Software (MOS) v2, including a detailed protocol.
Product documentation for VeriSeq NIPT v2 Solution.
For customers that have a MiSeqDx instrument with dual boot upgrade. If you are not sure if your instrument has the dual boot upgrade, contact Illumina Technical Support. This guide includes information about instrument components, MiSeq Operating Software, and instructions for performing a sequencing run and maintaining the MiSeqDx instrument.
Instructions for using the Illumina LIMS Web Client and Illumina LIMS Project Manager applications to manage projects and tasks, generate reports, and track history.
Instructions for using the Illumina LIMS Web Client and Illumina LIMS Project Manager applications to manage projects and tasks, generate reports, and track history.
This download contains Eco Real-Time PCR System Setup Poster, informing users on how to setup the hardware needed to run Eco Real-Time PCR.
2 MB
Aug 20, 2013
System overview and instructions for operating and maintaining the NextSeq 1000 and 2000 Sequencing Systems.
Jul 26, 2021
This download contains documentation explaining how to use eQTL Demo Data in GenomeStudio.