This is a test version of Biostars. For the public version, visit https://www.biostars.org.
How to make a Scatterplot and a DE gene list from ballgown results?

Hi and thanks for reading.

I have the ballgown element with e.ctab, t.ctab, i.ctab, e2t.ctab, i2t.ctab data for 4 samples (2 replicas of mutant and 2 replicas of control).

Well, I'm not able to process the data to make scatterplots and to extract the DE gene list.

I have now 2 variables: results_genes (with fc, pval, qval, mean and ids) and gene_expr (with the FPKM of each sample).

The scatterplot I want to do is one with all genes expressed and then, select and colour the activated genes (fc > 2) and the repressed ones.

How can I get there?

rna-seq rna-seq r
• 4,046 views • link
written by Clara • Clara

Good evening Clara,

Italiana?

Something like this (?):

c

--------------------------------------

...or this (?):

Volcano

• 0 views • link
written by Kevin Blighe Kevin Blighe

0 answers

No answers yet.

Log in to answer this question.

More posts like this