User: Robert Ivanek

gravatar for Robert Ivanek
Robert Ivanek640
Reputation:
640
Status:
Trusted
Location:
Switzerland
Last seen:
1 month ago
Joined:
6 years, 6 months ago
Email:
r************@unibas.ch

Posts by Robert Ivanek

<prev • 101 results • page 2 of 11 • next >
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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 10 weeks ago by Robert Ivanek640
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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 11 weeks ago by Robert Ivanek640
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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 4 months ago by Robert Ivanek640
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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 4 months ago by Robert Ivanek640
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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 5 months ago by Robert Ivanek640
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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 5 months ago by Robert Ivanek640
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Comment: C: Gviz: decreasing tick resolution
... Hi Will, It works for me. Can you post your code? Best, Robert ...
written 6 months ago by Robert Ivanek640
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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 6 months ago by Robert Ivanek640
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Comment: C: Adding a legend to a GeneRegionTrack?
... Hi, Currently it is implemented only for `DataTrack-Class`. Do you have an example code where do you want to use it? Best, Robert ...
written 7 months ago by Robert Ivanek640
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Answer: A: Truncated Gviz plot
... Hi Mario, Thanks for reporting it. I changed settings for "sashimi" plots in Gviz. There should be new version compiled in release (1.26.5) and in development (1.27.6). They should be available in next few days. Let me know if that fixed your problem. Best Robert ...
written 7 months ago by Robert Ivanek640

Latest awards to Robert Ivanek

Scholar 10 weeks ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Popular Question 9 months ago, created a question with more than 1,000 views. For IdeogramTrack and bigWig file errors in Gviz
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Gvis: Adding colour and transparency to overlaid alignment tracks
Scholar 9 months ago, created an answer that has been accepted. For A: Gviz GeneRegionTrack draw only one gene in the range
Scholar 9 months ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 2.5 years ago, created an answer that has been accepted. For A: Gviz: AlignmentsTrack from a bam file with non-UCSC chromosome names
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: Gvis: Adding colour and transparency to overlaid alignment tracks
Scholar 2.5 years ago, created an answer that has been accepted. For A: Different junction numbers from sashimi plot of Gviz package and summarizeJuncti
Scholar 2.5 years ago, created an answer that has been accepted. For A: Gviz GeneRegionTrack draw only one gene in the range
Scholar 2.5 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 GeneRegionTrack draw only one gene in the range
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 3.7 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.7 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 3.8 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 4.1 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"
Scholar 4.5 years ago, created an answer that has been accepted. For A: gviz: error when plotting BiomartGeneRegionTrack with just.group="above"

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