Kushal K Dey

icon indicating a website link http://kkdey.github.io icon indicating an email [email protected]

icon company Harvard School of Public Health icon location Boston, Massachusetts icon location Postdoctoral Researcher, Harvard School of Public Health, Alkes Price Lab

Results 15 comments of Kushal K Dey

Ignoring 'N', '-', and '*' in logos

I suggest you convert the input string vector into a matrix (PWM) format first and then run logomaker. Here is a demo, for dropping "A" from DNA sequence representation library(Logolas)...

Excessive warnings produced without REBayes installed.

Just an update: @pcarbo and others are working to incorporate the change to the `ashr` package, the call to which creates the warnings messages....Will update this space as soon as...

Test multipanel plots with Logolas and other base graphs and ggplot2 graphs

Test if it is possible to use the same idea as multipanel Logolas plots to mix Logolas plots with other base graphics plots and ggplot2 graphs. Add examples of these...

Test multipanel plots with Logolas and other base graphs and ggplot2 graphs

So it seems Logolas plots can be combined with ggplot2 graphics very smoothly as ggplot2 is essentially developed non grid graphics. An example of that is in `test_logolas_base_ggplot.R` under `vignettes`....

Bug with the separating line in EDLogo

Fixed this issue for the PSSM and the EDLogo plots...but I am keeping this open because users can encounter this problem in some crazy looking examples.