Initial commit

2025-11-29 18:02:37 +08:00
commit c1d9dee646
38 changed files with 11210 additions and 0 deletions
--- a/skills/phylo_from_buscos/templates/local/08a_partition_search.sh
+++ b/skills/phylo_from_buscos/templates/local/08a_partition_search.sh
@@ -0,0 +1,20 @@
+#!/bin/bash
+source ~/.bashrc
+conda activate phylo
+
+cd 06_concatenation
+
+iqtree \
+  -s FcC_supermatrix.fas \
+  -spp partition_def.txt \
+  -nt 18 \
+  -safe \
+  -pre partition_search \
+  -m TESTMERGEONLY \
+  -mset MODEL_SET \
+  -msub nuclear \
+  -rcluster 10 \
+  -bb 1000 \
+  -alrt 1000
+
+echo "Partition search complete! Best scheme: partition_search.best_scheme.nex"