I am doing expression analysis on samples having different cell types and their conversions. While doing the fold change of few genes w.r.t. to one cell type, I am getting some negative values of few genes in the other cell types and thus I cannot include them in the log2 FC plot. I would like to incorporate those genes into the plot? Is there any way or I have to remove them and make the plot (sadly)?
Thanks in advance, Susmita