[BioC] Gviz error with collapseTranscripts=TRUE
Hahne, Florian
florian.hahne at novartis.com
Wed Jun 26 14:05:38 CEST 2013
Stephanie,
this should be fixed now in version 1.5.6 in the development branch and
version 1.4.3 in the release branch. Thanks again for reporting this.
Florian
On 6/10/13 8:56 PM, "Stephanie M. Gogarten" <sdmorris at u.washington.edu>
wrote:
>gene.db <- select(Homo.sapiens, keys=c("CHRNA9", "UGT2B10", "UGT2A1"),
> columns=c("GENEID", "GENENAME"), keytype="SYMBOL")
>gene.tx <- transcripts(Homo.sapiens,
> vals=list("gene_id"=gene.db$GENEID),
> columns=c("GENEID", "TXNAME", "SYMBOL"))
>names(mcols(gene.tx)) <- c("gene", "transcript", "symbol")
>
>itrack <- IdeogramTrack(genome="hg19", chromosome="chr4")
>gtrack <- GenomeAxisTrack()
>genetrack <- GeneRegionTrack(gene.tx,
> genome="hg19", chromosome="chr4",
> showId=TRUE, collapseTranscripts=TRUE)
>plotTracks(list(itrack, gtrack, genetrack))
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