Detect QIAseq Methylation

There are two template workflows for calling methylation levels on targeted data: Detect QIAseq Methylation and Detect QIAseq Methylation with T Cell Infiltration. These are identical except that Detect QIAseq Methylation with T Cell Infiltration is designed for use with the "T Cell Infiltration (MHS-202Z)" panel, where it additionally predicts immune cell infiltration. The workflows can be found here:

        Template Workflows | Biomedical Workflows (Image biomedical_twf_folder_open_16_n_p) | QIAseq Sample Analysis (Image qiaseqrna_folder_closed_16_n_p) | Other QIAseq workflows (Image qiaseq_workflows_folder_closed_16_n_p) | Detect QIAseq Methylation

        Template Workflows | Biomedical Workflows (Image biomedical_twf_folder_open_16_n_p) | QIAseq Sample Analysis (Image qiaseqrna_folder_closed_16_n_p) | Other QIAseq workflows (Image qiaseq_workflows_folder_closed_16_n_p) | Detect QIAseq Methylation with T Cell Infiltration

The workflows take as input reads sequenced with a QIAseq Targeted Methyl Panel kit. For convenience, it is possible to process several samples at once using the batch mode highlighted in figure 16.1. Note that the workflows only support Illumina paired-end sequencing.

Image methylreads
Figure 16.1: Select QIAseq Targeted Methyl reads. Batch mode is available by checking the "Batch" option at the bottom of the wizard.

QIAseq panels are designed to use hg19 as reference, but custom panels can be designed against either hg19 or GRCh38. Custom primers can be imported with the Import QIAGEN Primer tool, see Import QIAGEN Primers.



Subsections