Get SYMBOL using mapIds with T2T genome ?
Hi I use to retrieve symbol from ENSEMBL id using this function:
resOrdered$symbol <- mapIds(org.Hs.eg.db,
keys=row.names(resOrdered),
column="SYMBOL",
keytype="ENSEMBL",
multiVals="first")
but it only works with the hg38 genome. Is there an alternative with the T2T genome and annotation ?
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T2T assembly is available via
Ensemblrapid release, if you need Ensembl ID: https://rapid.ensembl.org/Homo_sapiens_GCA_009914755.4/Info/IndexSo the only way is to write a script that extract the symbol from the gtf file ?