uc-bd2k / grmetrics Goto Github PK

Hello,

Thanks for such a great tool for drug response test. I know the response data is fitted into a sigmoidal curve. My question is if I want to know GR20 or GR80, instead of GR50, how to pull out these values in your R package?

Thanks!
Xiaoyong Fu

Hi there,

I'm Elena, postdoc researcher in the Experimental Pharmacology unit of Pediatric Oncohematology lab, University of Padova, Italy.

First of all, thank you for sharing the 'GRmetrics' package with the scientific community. It is very helpful for the high-throughput drug screening that I'm working on. However I'm quite new to R so it's difficult for me to change the code to draw the kind of graphs that I'm interested in.

I would like to draw the curves ("GR" or "rel_cell" metrics) relatives to a single variable (in my case sometimes it's easier to look at the effect of a single agent in all cell lines or, alternatively, the effect of all tested agents per cell line) and then export all graphs in a single PDF or TIFF file. I've already tried to use the "experiments" argument but it requires both 'cell_line' and 'agent' thus making a very very annoying job for me to write all possible combination (i.e. I've screened 320 drugs in 14 different cell lines)!!!

I know it may be a very dumb issue but I've got stuck with it. I've tried to use the loop function but I cannot get rid off the "experiments" constrain.

Please reach me at [email protected]

Thanks again for your job & help

Elena