plotCorrelate question

29 views

Skip to first unread message

Konstantinos Rouskas

unread,

Dec 7, 2016, 10:04:35 AM12/7/16

to deep...@googlegroups.com

Dear Madam or Sir,

I am user of the excellent suite of DeepTools in our local Galaxy server and I have a question about 'plotcorrelate'.

I want to compare the signal intensity of 2 replicates around a BED file. I generated normalized RPKM units (BAMcoverage), performed multibigwigsummary and then created a correlation plot (attached).

My question is why there are dots with different color (blue, red, dark blue or white blue etc)?

Please explain the meaning of different colors in the correlation plot.

Yours faithfully,

Konstantinos Rouskas

Institute of Molecular Biology and Genetics

Functional Genomics Laboratory

BSRC Alexander Fleming

Vari Attikis

Athens, Greece

email: rou...@fleming.gr

275s_TR_bin200_RPKM_noExt_PlotCorrelation.png

Fidel Ramirez

unread,

Dec 7, 2016, 11:41:51 AM12/7/16

to Konstantinos Rouskas, deep...@googlegroups.com

Hi,

Because the number of dots can be quite large then if there is some overlap of the dots the color intensity changes. I think we should add a color bar.

-fidel

--
You received this message because you are subscribed to the Google Groups "deepTools" group.
To unsubscribe from this group and stop receiving emails from it, send an email to deeptools+unsubscribe@googlegroups.com.
For more options, visit https://groups.google.com/d/optout.