YuuMJ1997/EukPhylo
1
0
Fork 0
mirror of http://43.156.76.180:8026/YuuMJ/EukPhylo.git synced 2025-12-27 01:30:24 +08:00
Code Issues Packages Projects Releases Wiki Activity

Create run_phylotol_command_line.txt

Browse Source 
Example command line to run PhyloToL
This commit is contained in:
MCLeleu 2024-08-14 10:33:21 -04:00 committed by GitHub
parent 3f8777c293
commit 2b9a887c04
No known key found for this signature in database
GPG Key ID: B5690EEEBB952194
1 changed files with 6 additions and 0 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

6
PTL2/Examplar_runs/Running_PTLp2/run_phylotol_command_line.txt Normal file
View File

@ -0,0 +1,6 @@
### Download and make your own ReadyToGo_AA_GC3_labelled folder with ReadyToGo files
### Update the taxa list with the taxa files in your ReadyToGo folder
### Download the Script folder
### than run :
python3 Scripts/phylotol.py --start raw --end trees --gf_list list_ogs.txt --taxon_list taxa_list.txt --data ReadyToGo_AA_GC3_labelled --output Output --similarity_filter --sim_cutoff 0.95 --og_identifier OG6 --tree_method iqtree > log1.out