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Important QIAGEN CLC software notifications

The QIAGEN Digital Insights Support and R&D teams are constantly reviewing support tickets and bug reports so any known issue can be handled and is fixed as soon as possible. Our aim is to ensure that QIAGEN CLC software maintains the highest possible quality to make your research faster, better and easier. Below is a list of known issues with suggested workarounds.

 

Issues affecting latest releases of products


Error message appears when Primer info settings are enabled


IVA plugin and upload of variants following retirement of Ingenuity Variant Analysis (IVA)


Two reference insertion variants can be reported at the same position


 

Issues affecting only older versions of products


Metadata layers are displayed incorrectly on results produced by the tool Create Heat Map for RNA-Seq


Error message when working with custom view settings with additional restriction enzymes


Mean reference gene coverage value in QC for RNAScan Panels report is too high


Updated values of unlocked parameters in Filter using Custom Criteria not used in first run of workflow


Extract Reads from Selection in abundance tables not working as expected in some circumstances


Taxonomic Profiling accepts multiple host index files but uses only the first one


Taxonomic Profiling reports too few reads in low complexity samples


Import of COSMIC Release v90 is not supported


Restrictions on sequence names when creating BLAST databases


Incorrect annotation and visualization of a small minority of overlapping variants


False positives and misannotation of some fusions in fusion detection workflows


Expression values from UPX 3′ Transcriptome Kit data are systematically too high in many cases


Create MLST Scheme tool leads to strains being linked to wrong sequence type in some cases


Incorrect ARO numbers on some ResFinder entries in QMI-AR databases


Bonferroni and FDR multiple testing corrections too strict for differential expression analyses


Local realignment of certain UMI reads may differ between runs


Sporadic corruption of analysis outputs on GPFS file systems


Variants that span a target region are not called


Variants covering the exact length of a target region are not called and variants are not called for target regions of 1bp


Interquartile range test of the Detect MSI Status tool reports all loci as unstable


Reference multi-nucleotide variants (MNVs) are removed when applying filter or annotation tools under some circumstances


Loss of reference allele information for neighboring SNPs when using certain downstream filtering tools after variant calling


Some larger single deletions reported as multiple, individual deletions when affine gap scoring used


RNA-Seq Analysis does not count some reads covering start-end position of a circular chromosome


QIAseq Mitochondria Panel DHS-105Z workflow analyses use incorrect genetic code


 

 

Issues from 2018 and earlier are available here for as long as the previous support site is still active. We strongly recommend to update your QIAGEN CLC Workbench if any of these issues are affecting your research.