cummeRbund merge filtered data sets

Question

[a_j_d_a_n]

Hi everyone,

I´m totally inexperienced in RNA Seq, so this is probably a stupid question: I started with cummeRbund for analyzing my RNA Seq data. For generating a heat map, I filtered my data for log2fc <+/-1 with:

filtered_max <- gene.diff[gene.diff$log2_fold_change > 1]
filtered_min <- gene.diff[gene.diff$log2_fold_change <- 1]

So I got 2 different data sets, but how can I merge them to generate the heat map?

Thanks a lot in advance!

Answer 1

[Satyajeet Khare]

You can also consider using p-value (significant == 'yes') so that you have only statistically significant differentially expressed genes. You can use & between both conditions and write one line to get upregulated (>1) and downregulated (<1) as a single set.