Question on Gviz
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@florianhahnenovartiscom-3784
Last seen 5.6 years ago
Switzerland
Hi Alejandro, Without seeing the structure of your data table I can’t be very concrete, but in general the Gviz package should give you all the flexibility you need in order to create a DataTrack object from it. You may want to carefully (re-)read the section about DataTracks in the package vignette, and also the documentation for the DataTrack() constructor (by typing '? DataTrack’). Hopefully this will already get you much closer to a solution. If you still feel that you are stuck after doing this home work, please send me a reduced example of your conservation table (the first couple of rows suffice) and I can help you with more concrete code suggestions. Florian ----------------------------------------------- Florian Hahne Expert Data Integration and Bioinformatics PCS Informatics Novartis Pharma AG, NIBR Klybeck Novartis Institutes for Biomed. Research WKL-135.P.18 Klybeckstrasse 141 CH-4057 Basel SWITZERLAND From: Alejandro Berrío <alebesc@gmail.com<mailto:alebesc@gmail.com>> Date: Wednesday 26 March 2014 16:51 To: Florian Hahne <florian.hahne@novartis.com<mailto:florian.hahne@novartis.com>> Subject: Question on Gviz Hello Florian, I am so excited with the Gviz package. I like it a lot and I hope I can make some nice genomic graphics. I was wondering if you can help me to solve a little problem I have. Here is the thing, I am interested in plotting a track from tabular data via converting a phascons conservation table that I downloaded using galaxy as xxx.tabular which then I modified at the position column from mouse (mm9) to another species data using a MAFFT alignment. I can plot the mm9 conservation table using UcscTrack but I cant plot the modified table I have in my folder because this is not in a datatrack format. Is it possible to make the conversion? I would appreciate any help and thanks in advance! Cheers, -- Alejandro Berrío, PhD Candidate University of Texas at Austin www.alejoberrio.com<http: www.alejoberrio.com=""> [[alternative HTML version deleted]]
Alignment Gviz Alignment Gviz • 1.0k views
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