Updating to Reggie 4.51
Support for EPICv2
The following changes are required for supporting EPICv2.
- The
BeadChipType
annotation has changed theEpic850K
value toEPICv1
and addedEPICv2
. Existing bead chip items need to be updated with a batch import. - Use a batch importer to set
BeadChipType=EPICv1
on existing methylation items (assuming to no items are using the EPICv2 chip yet). reggie-config.xml
need to be updated with settings that are specific for each chip type. See [7509] for an example.reggie-config.xml
need to be updated to use the new container:methylation-beta-v2-minfi1.48.sif
- Create a new software item for the methylation analysis.
Updated WGS variant calling pipeline
reggie-config.xml
need to be updated to use the new container:/wgs-variantcall-v2-gatk.4.4.sif
- Create a new software item for WGS variant calling.
- Existing variant call items should be deleted.
Last modified
9 months ago
Last modified on Jan 8, 2024, 9:18:51 AM
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