diff --git a/exercises/phylo_exercise.md b/exercises/phylo_exercise.md index c1bb4c91fd4d680301076ac1083b323bebeed243..4867220c254ae59f16c18b2a016ef542813ba5c5 100644 --- a/exercises/phylo_exercise.md +++ b/exercises/phylo_exercise.md @@ -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]