Question: DESEQ2: rnaseqGene fisison tutorial time course graph has non-numerical x-axis
0
gravatar for courtney.stairs
7 months ago by
courtney.stairs0 wrote:

Hi there,

I'm following along on the rnaseqGene tutorial using the fission package, and I was wondering why the x axis on the time course experiment in section 9 is categorical (that is, time 1-6) rather than in minutes.

http://master.bioconductor.org/packages/release/workflows/vignettes/rnaseqGene/inst/doc/rnaseqGene.html#time-course-experiments

I suppose it doesn't really make a difference, however, i think it does make the graph look like the time points were evenly spaced, which is not the case.

Is there a way to display it with the actual minutes? I tried converting the minutes to numbers:

fiss$minute <- as.character(as.numeric(fiss$minute))
ggplot(fiss,
+   aes(x = minute, y = count, color = strain, group = strain)) + 
+   geom_point()

But this doesn't really work, the times are still treated as discrete categories.

Thanks!

deseq2 rnaseqgene • 139 views
ADD COMMENTlink written 7 months ago by courtney.stairs0
Answer: C: DESEQ2: rnaseqGene fisison tutorial time course graph has non-numerical x-axis
0
gravatar for Michael Love
7 months ago by
Michael Love25k
United States
Michael Love25k wrote:

Thanks for the bug report, I've fixed this in the devel branch:

https://github.com/mikelove/rnaseqGene/commit/0f58347caa6c4c5e445f672071e0b57a7565e3cf

ADD COMMENTlink written 7 months ago by Michael Love25k

Thanks Michael! I have added those changes to my code :)

ADD REPLYlink written 7 months ago by courtney.stairs0
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