User: wsciekly.maciek

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Posts by wsciekly.maciek

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STRINGdb: enrichment function raises error
... Dear All, I am writing a script that uses STRINGdb library. When I call: enrichmentGO_Process <- string_db$get_enrichment(genes$STRING_id, category = "Process", methodMT = "fdr", iea = TRUE) I get an error: Loading required package: tcltk Error in result_create(conn@ptr, statement) : no suc ...
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Comment: C: Gviz: ylim of the AlignmentsTrack
... Dear Florian, I did just as you said and something is inconsistent here... I select the maximum coverage as: aln <- readGAlignments(opt$bam) cvg = coverage(aln) x = cvg[gr] print(max(x$"22")) And it prints 352; gr holds the interesting genomic region for me. La ...
written 14 months ago by wsciekly.maciek0
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Gviz: ylim of the AlignmentsTrack
... I'm having a problem with plotting the AlignmentsTrack in Gviz. My input is a bam file, I want to plot the coverage of a specified region. (~200nt). The problem is that I would like my histogram to be stretched to the ymax, therefore I want to set something like ylim=c(0,max_coverage_per_position). ...
gviz gviz-package written 14 months ago by wsciekly.maciek0 • updated 14 months ago by florian.hahne@novartis.com1.6k

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