Enrichment Germline

NOTE:

• Variant Calling is not currently supported for non-human runs. Illumina's recommendation is to review only the methylation data produced from all non-human runs

Input the following command to your local DRAGEN server:

/opt/edico/bin/dragen \
--output-directory ${desired_location} \
--fastq-list ${fastq-list.csv} \
--ref-dir ${mouse_ref_v11hashtable} \
--enable-map-align true \
--enable-map-align-output true \
--enable-duplicate-marking true \
--methylation-conversion illumina \
--methylation-generate-cytosine-report=true \
--methylation-compress-cx-report=true \
--output-file-prefix=${string} \
--sample-sex none

Note: The sample-sex parameter may be set to either "auto" or "none" in this case. User preference.

Note: Update the ${text} fields with the parameter specified