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This matrix has a probe_strand variable. I wanted to compare this strand annotations with the probes previously covered by EPICv1. It seems that the labels are "opposite": most of the EPICv1 + probes are labelled as - in EPICv2, and viceversa. See this example code:
Am I missing something? Do you know what could be the issue here?
Also, what is the best way to know the strand for the EPICv2 probes? I was getting it from EPICv2.hg38.manifest.gencode.v41.tsv.gz because I did not see the annotation in the manifest table EPICv2.hg38.manifest.tsv.gz
thanks a lot for the help
Raúl
The text was updated successfully, but these errors were encountered:
Hi,
thanks for your invaluable software and resources. I'm handling some EPICv2 data and I accessed your annotations to genes located here: https://github.com/zhou-lab/InfiniumAnnotationV1/raw/main/Anno/EPICv2/EPICv2.hg38.manifest.gencode.v41.tsv.gz
This matrix has a
probe_strand
variable. I wanted to compare this strand annotations with the probes previously covered by EPICv1. It seems that the labels are "opposite": most of the EPICv1+
probes are labelled as-
in EPICv2, and viceversa. See this example code:Am I missing something? Do you know what could be the issue here?
Also, what is the best way to know the strand for the EPICv2 probes? I was getting it from
EPICv2.hg38.manifest.gencode.v41.tsv.gz
because I did not see the annotation in the manifest tableEPICv2.hg38.manifest.tsv.gz
thanks a lot for the help
Raúl
The text was updated successfully, but these errors were encountered: