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How can I evaluate the software and how long is the evaluation period?


Information about free evaluation licenses for the CLC Workbenches

How can I cite CLC bio Workbenches and Servers in my paper?


Citation guidelines for the CLC Workbenches

How can I submit a feature request?


Describes how to find out if a particular feature is already available in the Workbench and how to submit a feature request

What happens to my data after the evaluation period if I don't purchase the software?


How to work with data that was generated in a Workbench after the evaluation period

Are all features of the software available during an evaluation?


Describes which functionality is available for trial users of a Workbench

How can a reviewer or colleague view my results if they don't have a license for the software?


Description of the "Viewing Mode" of the CLC Workbenches

How do I submit an error report for a CLC License Server to the CLC Support team?


How do I submit an error report for a CLC License Server to the CLC Support team?

CLC Workbench error report submission to the Support team


How do I submit an error report for a CLC Workbench to the Support team?

How do I get a new static license when upgrading between major software versions?


CLC Genomics Workbench | Upgrading static licenses between major software versions

Where is my license file?


CLC Genomics Workbench | Where is the location of a license file for CLC software

Which internet addresses does CLC software need access to?


CLC Genomics Workbench

Contact CLC specialists on the QIAGEN support team.


CLC Genomics Workbench | How do I contact the CLC specialist on the QIAGEN Advanced Genomics Support team?

Where can I find the manual?


CLC Genomics Workbench

Why can't I see the Workbench even though it is running on my Windows system?


CLC Genomics Workbench

Why is my Workbench taking so long to start up?


CLC Genomics Workbench

Which tasks require me to run the Workbench as an administrative user and how?


CLC Genomics Workbench

Will a high spec graphics card improve CLC Workbench performance?


CLC Genomics Workbench

Why does the Workbench 3D Viewer throw a OpenGL error suggeting that my graphics card needs updating?


CLC Genomics Workbench

Why do I see a JVM error when I start up the Workbench?


CLC Genomics Workbench

Why is the Workbench sometimes slow on OS X Mavericks and later versions?


CLC Genomics Workbench

How can I install plugins in a CLC Workbench?


CLC Genomics Workbench

Why are no plugins listed in Download Plugins tab of the Plugins Manager?


CLC Genomics Workbench

Why is the Workbench/Server holding onto memory between jobs?


CLC Genomics Workbench

Where can I get installer files for the software?


CLC Genomics Workbench

How do I change the memory limit for the CLC Workbench or Server java process?


CLC Genomics Workbench

How do I install or upgrade my Workbench on a non-networked machine?


CLC Genomics Workbench

How can I uninstall a CLC Workbench?


CLC Genomics Workbench

How do I download the software if I get a message about the signature being corrupt or invalid?


CLC Genomics Workbench

How can I get a copy of the Software Developer Kit?


CLC Genomics Workbench

Where is my CLC Workbench data?


CLC Genomics Workbench

How can I move my CLC data?


CLC Genomics Workbench

How can I set a different default location for data to be saved into?


CLC Genomics Workbench

Why is my data location greyed out in the Workbench navigation area?


CLC Genomics Workbench

What Linux distributions do you support?


CLC Genomics Workbench

Where should I install an upgrade to my CLC Workbench software?


CLC Genomics Workbench

Where are my temporary files to be written to and how can I change this?


CLC Genomics Workbench

Why are temporary files still written to the old default location after I redirect them?


CLC Genomics Workbench

What does an error about problems writing to temp mean?


CLC Genomics Workbench

How can I delete a whole data location and all its contents?


CLC Genomics Workbench

What is the difference between running a Genomics Server and running a Genomics Workbench on a large central machine that multiple users can access?


CLC Genomics Workbench

Are the tools of the CLC Workbenches or Servers multi-threaded?


CLC Genomics Workbench

Where is my user settings file?


CLC Genomics Workbench

Where are the Workbench logfiles?


CLC Genomics Workbench

What does it mean if a Mac installer says it "is damaged and can't be opened"?


CLC Genomics Workbench

Why has Download Genome failed in the CLC Genomics Workbench?


CLC Genomics Workbench | This FAQ includes different reasons why the Download Genome tool may fail in the Genomics Workbench and guidelines on how to resolve the issue

Why is my data import failing?


CLC Genomics Workbench | This FAQ describes different reasons why import of your data into the Workbench(es) are failing.

How can I install the CLC Workbench on a Linux system using the installer script?


CLC Genomics Workbench

How can I upgrade my CLC Workbench?


CLC Genomics Workbench

Why isn't my Genbank file accepted for import?


CLC Genomics Workbench | This article lists possible reasons why a Genbank import into the Workbench might fail.

How can I check if my data file is corrupt?


CLC Genomics Workbench | This FAQ includes information about checking integrity of a file before

Can I run a local BLAST search against multiple blast databases simultaneously?


CLC Genomics Workbench

What do I do if I end up with .zip files instead of .cpa files when I download plugins from the website?


CLC Genomics Workbench

Can I run CLC Workbench software on a machine that is not network connected?


CLC Genomics Workbench

Can I limit the number of CPUs used by a CLC Workbench?


CLC Genomics Workbench

Where is my Workbench installation directory?


CLC Genomics Workbench

Why are annotations black when I export to eps format?


CLC Genomics Workbench | This FAQ covers why annotations appear black when exported in eps and what you can do to correct this.

Can I rearrange the layout of a sequence or alignment for publishing?


CLC Genomics Workbench | The FAQ covers how you can rearrange a sequence or alignment or other elements in exported image for publishing purposes

How can I import mappings from a SAM/BAM file where the reference names are different to those in the Workbench?


CLC Genomics Workbench | This FAQ covers guidelines on how to import SAM/BAM file whose reference names are different than those present in the Workbench

Can I install a CLC Genomics Workbench on a compute cluster?


CLC Genomics Workbench

What does "error code 34" mean when I run the installer?


CLC Genomics Workbench

How can I add a new data location to the Navigation Area?


CLC Genomics Workbench

Why is the output either too big or too small when I print, compared to what I see on screen?


CLC Genomics Workbench | This FAQ covers how you can print your image in the correct size

How do I import a cas format file from the Assembly Cell into a workbench?


CLC Genomics Workbench | This FAQ explains how you can import .cas format file obtained from Assembly Cell into the Genomics and Biomedical Genomics Workbench

How can I import sequence reads in a SAM or BAM file?


CLC Genomics Workbench | This FAQ covers information regarding import of sequencing reads in a SAM or BAM file

Why do I run out of memory when importing a BAM file containing paired data?


CLC Genomics Workbench | This FAQ provides an explanation about why you may run of memory while trying to import a BAM or SAM file

How can I import a BAM file containing data mapped to the hg19 UCSC genome?


CLC Genomics Workbench | This FAQ covers how you can import a BAM file mapped to hg19 UCSC genome and the differences between hg19 genome obtained from UCSC vs. Ensembl or Genbank

Why are no BLAST databases listed in the Download BLAST Databases window?


CLC Genomics Workbench | This FAQ describes the reason why you may not see any BLAST databases in the Download BLAST Databases window and workarounds to obtain the databases

How can I evaluate the software on a non-networked machine?


CLC Genomics Workbench | Describes how to obtain an evaluation license for a machine that does not have a network connection

How do I transfer data using ftp details you've sent?


CLC Genomics Workbench | Transfer data for troubleshooting to an ftp area that was set up by the support team

Am I eligible for support for my CLC software?


CLC Genomics Workbench | Am I eligible for support for my CLC software?

Why is my destination vector not being accepted by the Gateway Cloning tool?


CLC Genomics Workbench

Why are my att sites not recognized by the Gateway Cloning tool?


CLC Genomics Workbench

How are the homozygous and heterozygous calls determined?


CLC Genomics Workbench | This FAQ described when a variants is classified as homozygous or heterozygous

How can I get amino acid prediction information for the variants in my data?


CLC Genomics Workbench | Described the different way of prediction amino acid changes when working with Stand-alone objects or Tracks

How can I analyze and visualize strand specific RNA-Seq data?


CLC Genomics Workbench

What does the error CPU usage limit exceeded mean when I run a search at the NCBI?


CLC Genomics Workbench

Should I run my assembly in stages?


CLC Genomics Workbench | This FAQ described why including all data in one de novo assembly is recommended.

Should I use a masked reference when working with exome or amplicon data?


CLC Genomics Workbench | This FAQ provide background information regarding why it is often not appropriate to use a masked reference for mapping

Why do the CLC Workbenches not import the full chromatogram from AB1 or ABI files?


CLC Genomics Workbench | This FAQ describes why you may not get a full chromatogram from an imported AB1 or ABI file

How can I export the coverage for each position in my mapping?


CLC Genomics Workbench | This FAQ describes how you can export coverage information to a .tsv or .csv file

How can I identify low or zero coverage regions in a mapping?


CLC Genomics Workbench | This FAQ show how to create an annotation track with low coverage regions.

Why do I see a grey box with text saying "Too much data for rendering" when I view a mapping?


CLC Genomics Workbench

How can I see all my reads when viewing high coverage areas of a mapping?


CLC Genomics Workbench

What are the memory requirements for the read mapper?


CLC Genomics Workbench

Can chromosomes downloaded from NCBI be used as a Track-based reference


CLC Genomics Workbench

How can I find out which machine my license has been downloaded for?


CLC Genomics Workbench | Which computer is using the licenses for the CLC software

How can I change the decimal notation used by the Workbench


CLC Genomics Workbench | The FAQ show how you can set the Workbench to use dot (.) or a comma (,) as the decimal separator.

What do the navigation area icons mean?


CLC Genomics Workbench | The icons in the navigation area signifies specific data object types. This FAQ list the icons and there meaning.

What is the difference between Tracks and Stand-alone objects?


CLC Genomics Workbench | This FAQ explain the difference between Tracks and Stand-alone objects.

Why are there ambiguity codes and N's in the paired reads of my mapping?


CLC Genomics Workbench | This FAQ describe why ambiguity codes and N's can be present in a read mapping, even that none was present in the un-mapped paired-end reads.

Why do I get contigs shorter than the minimum contig length I specified?


CLC Genomics Workbench

Why is the progress bar stalled/why is the progress bar at 100% but my job is still running?


CLC Genomics Workbench | Description of how to interpret the progress bar.

Should I merge my Overlapping Pairs or not?


CLC Genomics Workbench | Merging of overlapping pairs is generally not recommended in the CLC Workbenches. This FAQ provide information on the things to consider when deciding to merge overlapping pairs or not.

How do I save and apply customized View Settings?


CLC Genomics Workbench | To save the view settings in the side panel, so they are applied the next time that you open an object of the same type, please follow the instructions in this FAQ.

How to import predesigned primers to the Workbench?


CLC Genomics Workbench | This FAQ provides instruction on how you can import primers designed using third-party tools into the Workbench.

How can I change the owner of CLC licenses?


CLC Genomics Workbench | How to proceed if you wish to change the owner of CLC licenses

How can I run a batch job with multiple libraries for each sample?


CLC Genomics Workbench

Where can I find manuals and tutorials for CLC software?


CLC Genomics Workbench | Links to the manuals and tutorials of the CLC software

How do I download a network license?


CLC Genomics Workbench | A network license is downloaded to and served by a CLC License Server

How can I upgrade a network license between major versions?


CLC Genomics Workbench | Upgrading network licenses between major versions

How can I download a network license for the CLC License Server running on a non-networked machine?


CLC Genomics Workbench

What do I do with a network license?


CLC Genomics Workbench | How to make use of a network license

How do I download a desktop license for my Workbench (static license)?


CLC Genomics Workbench | Download a static desktop license for a Workbench

How can I download a static license file for a Workbench being run on a non-networked machine?


CLC Genomics Workbench | Download a static license file for a Workbench without external network access

How can I find out about my licenses?


CLC Genomics Workbench | How to get an overview of your licenses

CLC Product FAQs


CLC Genomics Workbench | Please find the link to the CLC product FAQs below.