add venn diagram for three way comparison

griffithlab · Jun 19, 2024 · 27b4063 · 27b4063
1 parent aad9820
commit 27b4063
Showing 3 changed files with 10 additions and 4 deletions.
diff --git a/_posts/0003-03-02-Differential_Expression-edgeR.md b/_posts/0003-03-02-Differential_Expression-edgeR.md
@@ -157,8 +157,8 @@ quit(save="no")
 
 Once you have run the edgeR tutorial, compare the sigDE genes to those saved earlier from ballgown:
 ```bash
-cat $RNA_HOME/de/ballgown/ref_only/DE_genes.txt
-cat $RNA_HOME/de/htseq_counts/DE_genes.txt
+head $RNA_HOME/de/ballgown/ref_only/DE_genes.txt
+head $RNA_HOME/de/htseq_counts/DE_genes.txt
 
 ```
 

diff --git a/_posts/0003-03-03-Differential_Expression-DESeq2.md b/_posts/0003-03-03-Differential_Expression-DESeq2.md
@@ -301,11 +301,17 @@ cat DESeq2_DE_gene_symbols.txt
 Alternatively you could view both lists in a web browser as you have done with other files. These two files should be here:
 
 * http://**YOUR_PUBLIC_IPv4_ADDRESS**/rnaseq/de/ballgown_DE_gene_symbols.txt
-* http://**YOUR_PUBLIC_IPv4_ADDRESS**/rnaseq/de/htseq_counts_edgeR_DE_gene_symbols.txt
+* http://**YOUR_PUBLIC_IPv4_ADDRESS**/rnaseq/de/DESeq2_DE_gene_symbols.txt
 
-##### Example Venn Diagram (DE genes from StringTie/Ballgown vs HTSeq/EdgeR)
+##### Example Venn Diagram (Two-way comparison: DE genes from StringTie/Ballgown vs HTSeq/DESeq2)
 
 <br>
 {% include figure.html image="/assets/module_3/venn-ballgown-vs-deseq2.png" width="400" %}
 
 
+##### Example Venn Diagram (Three-way comparison: DE genes from StringTie/Ballgown vs HTSeq/DESeq2 vs HTSeq/EdgeR)
+
+<br>
+{% include figure.html image="/assets/module_3/venn-ballgown-vs-deseq2-vs-edger.png" width="400" %}
+
+
diff --git a/assets/module_3/venn-ballgown-vs-deseq2-vs-edger.png b/assets/module_3/venn-ballgown-vs-deseq2-vs-edger.png