[BioC] Gviz error with collapseTranscripts=TRUE

Hahne, Florian florian.hahne at novartis.com
Wed Jun 26 12:41:17 CEST 2013

Hi Stephanie,
thanks for reporting this. I can reproduce the issue and will look at a
fix soon. Will let you know,

On 6/10/13 8:56 PM, "Stephanie M. Gogarten" <sdmorris at u.washington.edu>

>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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