User: andrew.gehrke

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Posts by andrew.gehrke

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Answer: A: Diffbind heatmap color change
... As always, thank you very much for your help and prompt response!! -Andrew ...
written 3 months ago by andrew.gehrke0
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Diffbind heatmap color change
... Hi Rory, Sorry for the mundane question, but I think I used to be able to change the color of heatmaps in Diffbind using col = , and now that doesnt seem to work,  Now I get the following error: > plot(samples_final, col ="blues") Error in dba.plotHeatmap(x, ...) :    argument 2 matches multipl ...
diffbind rory stark written 3 months ago by andrew.gehrke0
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Comment: C: loading dba.plotVolcano in DiffBind
... Hi Rory thanks for the 2.3.13 upload, everything looks great! For the dba.Volcanoplots, is there a way to plot all of the differences between multiple samples?  For example, when I upload data for samples X,Y, Z, set up a contrast and make a volcano plot, it looks like its plotting the differences ...
written 7 months ago by andrew.gehrke0
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Comment: C: loading dba.plotVolcano in DiffBind
... Great thanks so much, ive got things working!   Ive noticed though that in figure 7 of the new DIffbind Vignette shows "significant differential bound sites shown in red".  However when I look at the legend, it has the red values listed as FDR > 0.05, while the blue dots are < 0.05.  Is it po ...
written 7 months ago by andrew.gehrke0
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Comment: C: loading dba.plotVolcano in DiffBind
... Hi Rory, Thanks for the prompt response!  When trying to install DiffBind_2.3.12 as you instructed, I get the following two error messages: Error in fetch(key) :    lazy-load database '/Library/Frameworks/R.framework/Versions/3.3/Resources/library/DiffBind/help/DiffBind.rdb' is corrupt > libra ...
written 7 months ago by andrew.gehrke0
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loading dba.plotVolcano in DiffBind
... I noticed a new vignette posted for DiffBind, which now includes an awesome option to plot data as a volcano plot.  I would love to use this, but I cant seem to access this option in DiffBind even when updating the package.   Could you please advise the best way to import the dba.plotVolcano option ...
chipseq diffbind atac-seq rory stark written 7 months ago by andrew.gehrke0 • updated 7 months ago by Rory Stark2.1k

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