Tutorials

QCI Interpret Translational Tutorial

Fri, 03 Oct 2025 19:44:38 GMT

Adding users to your QDI license

Thu, 07 Aug 2025 08:04:56 GMT

Learn how to add users to your QIAGEN Digital Insights (QDI) license through the QDI Admin Tool (QDIAT).

Explore ATCC's most popular cell lines that contains authenticated Omics data

Tue, 13 Aug 2024 21:59:06 GMT

Explore a growing database of human and mouse cell line ‘omics data from common and novel cell lines, primary tissues and cells from ATCC. Speed up cell line characterization for your preclinical experiments with quality cell line ‘omics data.

Explore Hand curated ‘omics data from ATCC's most popular cell lines that...

Tue, 13 Aug 2024 21:59:01 GMT

Explore expression data from ATCC Cell line lands into analysis with OmicSoft...

Tue, 13 Aug 2024 21:53:04 GMT

OmicSoft API : Flexible API access for complex multi-omics queries

Fri, 19 Jul 2024 16:30:34 GMT

API access to QIAGEN OmicSoft data, you’ll be empowered to get right to the data analysis with queries of small or huge data slices from our unified ‘omics database. QIAGEN's rigorous metadata curation approach combined with API access to structured and integrated ‘omics data allows you to perform large and complex cross-database, multi-omics queries.

Plugins Installation for CLC Workbench

Tue, 04 Jun 2024 13:59:14 GMT

Description: Plugins extend the functionality of CLC Workbenches and CLC Genomics Server. How to install plugins in a CLC Workbench is highlighted in this video. A list of the available plugins is available from the following webpage: https://digitalinsights.qiagen.com/products-overview/plugins/

Batch Renaming Files in CLC Workbench

Tue, 16 Jan 2024 14:10:39 GMT

Add/remove characters from element names or replace parts of names, optionally using regular expressions.

Convert Legacy QIAseq Custom Analyses to v24 with QIAseq Panel Analysis...

Tue, 09 Jan 2024 19:00:00 GMT

Custom analyses created with the Analyze QIAseq Samples tool in versions 23.x and earlier are no longer supported from version 24 onwards. The tool Convert Legacy QIAseq Custom Analyses helps converting custom analyses by creating custom sets and/or pre-configured workflow copies.

QIAseq Panel Analysis Assistance for Standard QIAseq Panels

Mon, 08 Jan 2024 17:25:43 GMT

Introduction to QIAseq Panel Analysis Assistant for Workbench 24 onwards.

How to use the QIAseq Panel Analysis Assistant
Selecting available preconfigured analyses workflows
Run a QIAseq Panel Analysis

QIAseq Panel Analysis Assistance for Custom QIAseq Panels

Mon, 08 Jan 2024 17:24:17 GMT

For custom QIAseq panels, custom files have to be used instead of some standard Reference data elements. By using a suitable analysis workflow from the QIAseq Panel Analysis Assistant, data from custom QIAseq panels/kits can be analyzed by:

Creating a custom reference data containing the imported elements.
Using a workflow copy configured to use these imported elements.

If you are new to the QIAseq Panel Analysis Assistance, please watch the "QIAseq Panel Analysis Assistance for Standard QIAseq Panels" video tutorial first.

Overview of Result Files Created by QIAseq DNA Workflows

Wed, 03 Jan 2024 13:24:03 GMT

This video provides an overview of the result files obtained when running the "Identify QIASeq DNA Somatic Variants" workflow. How to run the workflow is outlined in the tutorial Find Actionable Variants With QIASeq Panels.

Making Use of Workflow Snippets

Wed, 03 Jan 2024 13:23:26 GMT

Different workflows can share a sequence of connected tools between them. To speed up the creation of new workflows, workflow fragments can be stored in snippets and reused.

Modification of Workflows in CLC Genomics Workbench - Part 2

Wed, 03 Jan 2024 13:22:52 GMT

Additional modification options for existing workflows include the removal/addition of tools as well as output files in a workflow. This is the focus of this video.

Modification of Workflows in CLC Genomics Workbench - Part 1

Wed, 03 Jan 2024 13:22:12 GMT

While existing workflows (e.q. Template Workflows) provide a good starting point for data analysis, it is commonly required to tailor data analysis towards specific needs. How parameters can be modified is discussed in this video.

How to Create an Analysis Workflow in CLC Genomics Workbench

Wed, 03 Jan 2024 13:21:36 GMT

Creating analysis pipelines for automation and standardization using the Workflow Editor.

Introduction to Workflows in CLC Genomics Workbench

Wed, 03 Jan 2024 13:21:02 GMT

Introduction to Workflows for the graphical user interface guided construction of bioinformatics analysis pipelines.

Importing Illumina Reads into CLC Genomics Workbench

Wed, 03 Jan 2024 13:20:31 GMT

Importing single and paired end reads. If the organization of Illumina files for import does is not the default, customization of the import is possible using the Custom read structure field.

Easily process your FASTQ files

Fri, 17 Nov 2023 13:47:09 GMT

Do you ever get stuck processing raw FASTQ data or cell matrix data from your RNA-seq, scRNA-seq or other NGS assays using? Are you interested in creating a differential expression table that’s compatible with the QIAGEN Ingenuity Pathway Analysis (IPA) software you use? In this training, you’ll learn how to use QIAGEN CLC Genomics Workbench to easily process your FASTQ files and generate differential expression tables without using command line tools. We’ll also explore how you can generate other desired outputs, such as volcano plots, heatmaps, PCA/PCOA plots and more.

Downloading Reference Genomes in CLC Genomics Workbench

Wed, 18 Oct 2023 15:21:12 GMT

Find and download commonly used reference data sets provided by QIAGEN and other public resources into CLC Genomics Workbench by using the Reference Data Manager.

Creation of Hybrid Reference Data in CLC Genomics Workbench

Wed, 18 Oct 2023 15:20:35 GMT

In cases where more than one organism is sequenced within one sample, a reference containing all the organisms may be needed. This video will walk you through the steps of creating a hybrid reference dataset.

Setup of Custom Reference Data in CLC Genomics Workbench

Wed, 18 Oct 2023 15:19:39 GMT

Generate and manage individual custom Reference Data Sets with the Reference Data Manager to simplify the configuration of your workflows with regards to reference data inputs.

Importing Reference Data into CLC Genomics Workbench

Wed, 18 Oct 2023 15:18:44 GMT

Import reference data sets located on your hard drive into CLC Genomics Workbench.

Modification of Custom Reference Data in CLC Genomics Workbench

Tue, 17 Oct 2023 09:58:00 GMT

Modifing custom reference data sets with the Reference Data Manager.

Introduction to QIAGEN CLC Genomics Workbench & Getting Started

Thu, 14 Sep 2023 19:31:33 GMT

In this training, we will introduce you to QIAGEN CLC Genomics Workbench, including a live demo of the basic features and main functionalities.
During the training, we’ll cover:
• A general overview of the Workbench user interface
• Easy installation on Windows, Mac and Linux
• Plugin installation, e.g., Biomedical Genomics Analysis plugin
• Reference Data Management
• Working with reads from various NGS platforms
• Running individual tools and workflows
• Batch processing of data
• Data visualization using Track List/Genome Browser
• How to export of data and share workflows
• Q&A

Understanding the P-Value of Overlap Statistic in IPA

Fri, 27 Jun 2025 21:28:20 GMT

Learn how to interpret your p-value of overlaps results in IPA. You can gain a deeper understanding of the right-tailed Fisher’s Exact Test, why it’s used in IPA, how the results are calculated, and caveats to keep in mind when interpreting your results.
For more information visit our website

Sections:

0:00-1:09 Introduction to the video. The two types of p-values that are relevant for IPA and how they differ.

1:09-2:25 History of the Fisher’s Exact Test: the “Lady Tasting Tea” experiment.

2:25-5:50 Hypothesis testing for enrichment in IPA. The reference set, the null hypothesis used, and the overlap of molecules defined.

5:51-7:58 Why the right-tailed Fisher’s Exact Test is used in IPA.

7:58- 8:41 Explanation of sampling and expected proportions from the hypergeometric distribution.

8:41-9:34 Defining significance levels in the distribution. Why only the right-tailed, rather than two-tailed test, is considered in IPA.

9:35-11:04 The p-value defined and default significance level used in IPA.

11:04-11:12 How the p-value is calculated. How data is entered into the 2 x 2 contingency table and the formula used.

11:13-13:34 Example calculation and interpretation using the “Lady Tasting Tea” experimental data. Why the p-value of overlap calculations are Exact.

13:35-15:09 Transcriptomics example: Number of molecules tested and how they are categorized.

15:10-16:10 Transcriptomics example: data in 2 x2 contingency table, p-value calculation performed and interpreted.

16:11-18:07 Caveats for using and interpreting the p-value of overlap statistic in IPA.

18:08-18:36 Where to find more information about IPA and Customer Support information.

Data Formatting in IPA

Thu, 10 Jul 2025 16:24:35 GMT

Learn how to format your dataset for upload and subsequent analysis in IPA. In this video tutorial, you will discover the best practices for structuring your dataset and the data measurement value types you can use for various IPA analyses.

Interested in learning more?

Click here

IPA data formatting tutorial

Tue, 01 Jul 2025 11:47:04 GMT

Presented by Lynne Mullen, Ph.D.

IPA data upload tutorial

Tue, 01 Jul 2025 11:48:00 GMT

Presented by Lynne Mullen, Ph. D.