[galaxy-user] Question please -manhattan plots
ross.lazarus at gmail.com
Mon Jun 20 01:18:50 EDT 2011
As the tool help says about the input file: "Tabular Data is a tab
delimited header file with chromosome, offset and p values to be
In other words if you have a text file containing tab delimited
columns, with a header row and some data you should be good to go.
Attached is a sample that works for me on main - although the plots
look rather silly.
On Sun, Jun 19, 2011 at 6:53 PM, Sagi <sagi.polani at gmail.com> wrote:
> Dear sir,
> I was looking through your Galaxy Wiki, but could not find an answer to my
> question. I would most appreciate any help regarding the following issue:
> I'm conducting a GWAS study in horses. Up until now I've been using PLINK
> for my association analysis, and now I wish to generate a Manhattan plot.
> I've been looking through your online version of Galaxy-Tool under SNP/WGA:
> QC; LD; Plots --> Manhattan/QQ: link, and I've read all the instructions. I
> think I have an appropriate file ready to run this on your online version,
> but I was hoping you can send me an example file of how exactly the data
> should look like (and not just brief explanations about the syntax), and in
> what format exactly should I upload it? If you have a tutorial about this,
> even better.
> Many thanks!
> Sagi Polani
> Molecular Evolution Lab
> Koret School of Veterinary Medicine
> The Hebrew University of Jerusalem
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Ross Lazarus MBBS MPH;
Associate Professor, Harvard Medical School;
Director of Bioinformatics, Channing Lab; Tel: +1 617 505 4850;
Head, Medical Bioinformatics, BakerIDI; Tel: +61 385321444;
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