Skip to content
Snippets Groups Projects

Update file phylo_exercise.md

Merged Fanny Wegner requested to merge master-patch-a538 into master
1 file
+ 4
1
Compare changes
  • Side-by-side
  • Inline
@@ -203,10 +203,13 @@ Change the variables to your needs.
### DOWNLOAD TREE FILES
### DOWNLOAD RESULTS
The complete output for the SNP calling, MSA and tree can be found here, download it into a `[target_directory]` of your choice.
In every snippy folder you will find a folder called `iqtree` containing the phylogenetic tree (the .tre file).
```bash
# Typestrain as reference
cp -r /shares/amr.imm.uzh/data/projects/Blockcourse_BIO296/FS2023/Participants_data/illumina/03_output_mrsa/snippy_ref_typestrain [target_directory]
Loading