diff --git a/exercises/phylo_exercise.md b/exercises/phylo_exercise.md index ea19b2a94ac87d98d11a1a94db70ec442f0cbf32..c1bb4c91fd4d680301076ac1083b323bebeed243 100644 --- a/exercises/phylo_exercise.md +++ b/exercises/phylo_exercise.md @@ -203,6 +203,21 @@ Change the variables to your needs. +### DOWNLOAD TREE FILES + +The complete output for the SNP calling, MSA and tree can be found here, download it into a `[target_directory]` of your choice. + +```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] + +# Hybrid assembly as reference +cp -r /shares/amr.imm.uzh/data/projects/Blockcourse_BIO296/FS2023/Participants_data/illumina/03_output_mrsa/snippy_ref_hybrid [target_directory] +``` + + + +