Hello,

Is it ok to plot the values from the LINCS level 4 data ("level4_beta_all_n3026460x12328.gctx")?

I would like to plot the level 4 values for my compound of interest, on a single cell line, at a specific time and concentration, and the DMSO values from the same plates (column "rna_plate" from the metadata file "instinfo_beta.txt").

I am using parse_gctx to these specific samples and creating a matrix with the function mat from this data.

EGCG10uM24h_ds <- parse_gctx(ds_path, cid=SamplesEGCG10uM24h)
m <- mat(EGCG10uM24h_ds)

Would it be correct to use this data for creating dot plots for single genes?

Thank you! Alex