Question: Annotate DMR information
0
gravatar for yassimaryam
4.6 years ago by
yassimaryam0 wrote:

We have used “GRCh37/hg19” for reference genome in our project. We convert output file to GenomicRange object that has been 3 columns included that: (Seqnames, ranges, strand).

We loud different packages about annotation for instance:

library("GenomicRanges")

library("AnnotationHub")

library("rtracklayer")

library(GenomicFeatures)

library(TxDb.Hsapiens.UCSC.hg19.knownGene)

Nowdays, we use “annotateDMRInfo(SigDMR,'TxDb.Hsapiens.UCSC.hg19.knownGene')”, but we encountered an error :

“annotateDMRInfo(SigDMR,'TxDb.Hsapiens.UCSC.hg19.knownGene')

Error in txName.known[naInd] <- names(tss)[nearestInfo.tr[, "subjectHits"]] :

replacement has length zero

In addition: Warning message: In .Seqinfo.mergexy(x, y) :

The 2 combined objects have no sequence levels in common. (Use

suppressWarnings() to suppress this warning.)”

genome • 1.4k views
ADD COMMENTlink written 4.6 years ago by yassimaryam0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1295 users visited in the last hour
_