User: Robert Ivanek

gravatar for Robert Ivanek
Robert Ivanek620
Reputation:
620
Status:
Trusted
Location:
Switzerland
Last seen:
10 minutes ago
Joined:
6 years, 4 months ago
Email:
r************@unibas.ch

Posts by Robert Ivanek

<prev • 93 results • page 1 of 10 • next >
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Comment: C: How to center data points on coordinates (bases) in Gviz?
... Thanks for bringing that up. There was a bug in the `Gviz` and I pushed fix into both branches (release 1.28.1 and devel 1.29.1). Now the data points, ticks and tick-marks should be aligned. Let me know if that works for you. BTW. When reading the `bedGraph` manually, keep in mind that start is "0 ...
written 5 days ago by Robert Ivanek620
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Comment: C: Normalized sashimi plots with Gviz
... Can you be more specific? with detailed example? ...
written 13 days ago by Robert Ivanek620
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Comment: C: Normalized sashimi plots with Gviz
... Hi, It is currently not implemented to have normalized sashimi plots. Quick solution might be to read-in only fraction of the data and make the figure with imported data instead. Best Robert ...
written 13 days ago by Robert Ivanek620
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Answer: A: Unintended grey dot in Gviz plots
... Dear Robert, Thanks for pointing that out. It is actually result of the check, if device supports transparency. Currently I do not have an idea how to check it in a less disturbing way. However I moved that point to the bottom-left corner where it should be less visible. I committed the change to ...
written 19 days ago by Robert Ivanek620
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Comment: C: Gviz (GenomicInteractions) arc height and boundaries
... Hi Nik, If you provide me with a reproducible example I can have a look what could be implemented in `Gviz` to improve your visualisation. Best, Robert ...
written 10 weeks ago by Robert Ivanek620
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Comment: C: Can GViz show multiple HighlightTrack with multiple colors in the same track?
... Thanks. I fixed it in the documentation it will be available with next minor version bump. ...
written 11 weeks ago by Robert Ivanek620
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Comment: C: Gviz unable to retrieve cytoband data for sacCer3 when trying to create ideogram
... There is no cytoband data for sacCer3 at UCSC. ...
written 3 months ago by Robert Ivanek620
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Answer: A: Gviz unable to retrieve cytoband data for sacCer3 when trying to create ideogram
... Hi, This was just a warning not error, telling you that there is no cytoband data available for yeast genome ''sacCer3". However in that case, `Gviz` draws a simple chromosome highlighting the position of your interest: ``` library(Gviz) plotTracks(ideogram, from=1e5, to=1.5e5) ``` Best Robert ...
written 3 months ago by Robert Ivanek620
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Comment: C: Gviz: decreasing tick resolution
... Hi Will, It works for me. Can you post your code? Best, Robert ...
written 4 months ago by Robert Ivanek620
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Job: Postdoctoral Fellow in Genomics (University of Basel, Switzerland)
... __Postdoctoral Position: Bioinformatics (100%)__ The [Molecular Immune Regulation group](https://biomedizin.unibas.ch/en/research/research-groups/jeker-lab/) at the Department of Biomedicine of the University Hospital Basel in Switzerland is seeking a highly motivated postdoc with a strong backgrou ...
job postdoc switzerland basel written 4 months ago by Robert Ivanek620

Latest awards to Robert Ivanek

Popular Question 7 months ago, created a question with more than 1,000 views. For IdeogramTrack and bigWig file errors in Gviz
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Gvis: Adding colour and transparency to overlaid alignment tracks
Scholar 7 months ago, created an answer that has been accepted. For A: Gviz GeneRegionTrack draw only one gene in the range
Scholar 7 months ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Teacher 2.3 years ago, created an answer with at least 3 up-votes. For A: Gvis: Adding colour and transparency to overlaid alignment tracks
Scholar 2.3 years ago, created an answer that has been accepted. For A: Gviz: AlignmentsTrack from a bam file with non-UCSC chromosome names
Scholar 2.3 years ago, created an answer that has been accepted. For A: Different junction numbers from sashimi plot of Gviz package and summarizeJuncti
Scholar 2.3 years ago, created an answer that has been accepted. For A: Gviz GeneRegionTrack draw only one gene in the range
Scholar 2.3 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.3 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.3 years ago, created an answer that has been accepted. For A: Gviz GeneRegionTrack draw only one gene in the range
Scholar 3.4 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.5 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.5 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.6 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.9 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 4.4 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"

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