CLC Genomics Workbench Premium 26.01

CLC Genomics Workbench is a powerful software solution and a complete toolkit in the field of genomics , modeling, epigenomics, and metagenomics that helps scientists and professionals by using state-of-the-art technology, unique features, and widely used algorithms. slow to perform well the challenges related to the analysis of genetic information. This software allows you to fully analyze your NGS data with a user-friendly bioinformatics interface. You can also find relationships between symbiotic microorganisms with the help of this software and easily analyze complex metagenomic data.

CLC Genomics Workbench software fully supports NGS platforms such as Illumina, IonTorrent, PacBio and GeneReader and provides the workflow of cell RNAs to perform various analyzes on gene levels. This software also allows you to make important discoveries in research on human diseases and perform your analyzes in the best possible way.

Features and features of CLC Genomics Workbench software:

• Analysis of genetic data
• Using advanced technology and algorithms
• NGS data analysis
• Professional and attractive user interface
• Conducting research and data analysis in the fields of biological sciences

required system

v23:

This page lists the requirements of all CLC software products, plugins and special use cases. Requirements for Biomedical Genomics Analysis plugin, CLC Single Cell Analysis Module, CLC Microbial Genomics Module vary and are listed separately below, as are special use case requirements for 3D Molecule Viewer, read mapping and de novo assembly. Please note that analysing data generated with QIAseq panels using the Biomedical Genomics Analysis require 16 GB RAM, 24 GB recommended.

QIAGEN CLC Genomics Workbench

^* Standard requirements without use of functionality in plugins

• Windows 10, Windows 11, Windows Server 2012, Windows Server 2016, Windows Server 2019 and Windows Server 2022
• Mac: macOS 11, 12, and 13
• Linux: RHEL 7 and later, SUSE Linux Enterprise Server 12 and later. The software is expected to run without problem on other recent Linux systems, but we do not guarantee this. To use BLAST related functionality, libnsl.so.1 is required.
• 64 bit operating system
• 16 GB RAM recommended (8 GB RAM required)
• 1024 x 768 display required
• 1600 x 1200 display recommended

Memory and CPU settings for mapping reads

For mapping to the human genome ( 3.2 gigabases), or genomes of a similar size, 16 GB RAM is required. Smaller systems can be used when mapping to small genomes.

Larger amounts of memory can help the overall speed of the analysis when working with large datasets, but little gain is expected above about 32 GB of RAM.

Increasing the number of CPUs can decrease the time a read mapping takes, however, performance gain is expected to be limited above approximately 40 threads.

System requirements for 3D viewers

A graphics card that supports OpenGL 2.0.

Note: 3D rendering is only supported when the CLC Genomics Workbench is installed on the same machine the viewer is opened on. Indirect rendering (such as X11 forwarding through ssh), remote desktop connection/VNC, and running in virtual machines is not supported.

Plugins and Modules

Biomedical Genomics Analysis plugin

The system requirements of Biomedical Genomics Analysis are the same as those for the CLC Genomics Workbench apart from the following:

• 16 GB RAM required
• 24 GB RAM recommended
• Minimum 100 GB free disk space in the tmp directory
• Minimum 90 GB free disk space required in the CLC_References directory of the CLC Workbench if you are not connecting to a CLC Server and using a CLC_References area on that server. The reference data location on a CLC Workbench can be changed from the default location, as described in The Reference Data Manager.

Special requirements for QIAseq analysis

The following use cases have specific system requirements

• UPX 3′ or UPXome analysis on multiple samples sometimes requires more than 24 GB of RAM.
• For full Exome, Multimodal Pan Cancer or TMB analysis, we recommend running on a server (see requirement below). The number of cores significantly affects the runtime.

CLC LightSpeed Module

The system requirements of the CLC LightSpeed Module are the same as those for the CLC Genomics Workbench, apart from the following:

• All LightSpeed analyses require 32 GB RAM.
• A CPU that supports AVX2 or NEON instruction sets is required.

CLC Single Cell Analysis Module

The system requirements of CLC Single Cell Analysis Module are the same as those for the CLC Genomics Workbench, apart from the following:

• 16 GB RAM recommended

Most tools can be run on modest hardware such as a laptop, especially when the number of cells is under 50,000.

Special requirements for mapping reads

For mapping reads to references, we recommend using a CLC Genomics Server (see requirements below). Although a laptop with 16 GB of RAM can be used, the large number of reads are likely to lead to long runtimes when there are more than 1000 cells.

Long Read Support (beta) plugin

The system requirements of the Long Read Support (beta) plugin are the same as those for the CLC Genomics Workbench, apart from the following:

• Tools require a CPU that supports the AVX2 or NEON instruction sets.

CLC Microbial Genomics Module

The system requirements of CLC Microbial Genomics Module are the same as those for CLC Genomics Workbench, apart from the following:

• Tools using DIAMOND and ShortBRED require a CPU that supports the AVX2 or NEON instruction sets.

Special requirements for the MLST Scheme tools

The system requirements for the MLST Scheme tools depend on the size of the MLST schemes (both the number of alleles and the number of sequence types). A laptop with 16GB of memory is normally sufficient for 7-gene schemes or cgMLST schemes based on a moderate number of isolates. Typing or constructing larger schemes may require more memory, and in general, we recommend at least 64GB of memory when working with cg/wgMLST schemes based on more than 100 isolates.

Special requirements for the Taxonomic Profiler

he quality performance of the Taxonomic Profiler depends on the reference database used – the more complete a database, the better the quality. However, running the Taxonomic Profiler with a given database size will require at least the same amount of memory. For example, running with a 14 GB database requires at least 16 GB of RAM, and running with a 56 GB database requires a minimum of 64 GB RAM. When creating your reference database with the Download Microbial Reference Database tool, you will get a warning about the memory requirements needed for running the Taxonomic Profiler with this database.

Special requirements for De Novo Assemble Metagenome

It is recommended to have at least 16 GB RAM when running the De Novo Assemble Metagenome.

Other requirements

The PCoA 3D viewer requirements are the same as the 3D viewer requirements described in the CLC Genomics Workbench section above.

The Sunburst viewer makes use of JavaFX and may not work on older Linux kernels. An updated list of requirements for JavaFX can be found at http://www.oracle.com/technetwork/java/javafx/downloads/supportedconfigurations-1506746.html.