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error with Ensembl-based annotation #233

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yfan18 opened this issue Mar 11, 2024 · 0 comments
Open
4 tasks

error with Ensembl-based annotation #233

yfan18 opened this issue Mar 11, 2024 · 0 comments

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@yfan18
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yfan18 commented Mar 11, 2024

Describe you issue

#Ensembl-based annotation,
edb <- EnsDb.Hsapiens.v97
seqlevelsStyle(edb) <- "UCSC"
peakAnno.edb <- annotatePeak(myFile, tssRegion=c(-3000, 3000),
TxDb=edb, annoDb="org.Hs.eg.db")

seqnames did not match geneChr.
e.g. chr20 vs 2

<style> </style>
seqnames start end annotation geneChr geneStart geneEnd geneLength geneStrand
chr20 58888051 58890615 Promoter (<=1kb) 2 58888413 58900410 11998 1
  • Make a reproducible example (e.g. 1)
  • your code should contain comments to describe the problem (e.g. what expected and actually happened?)

The same error for the example in you tutorial where ensDb.Hsapiens.v75 was used.

Ask in right place

  • for bugs or feature requests, post here (github issue)
  • for questions, please post to Bioconductor or Biostars with tag ChIPseeker
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