Snakemake Rules
| a | ||
astral (main/supertree) | Rule | |
| c | ||
concatenate_alignments (main/supermatrix) | Rule | |
create_astral_input (main/supertree) | Rule | |
| g | ||
get_cds_seq (main/alignment) | Rule | |
gene_tree_iqtree (main/gene_tree) | Rule | |
gene_tree_ascii (main/gene_tree) | Rule | |
gene_tree_render (main/gene_tree) | Rule | |
gene_tree_consensus_render (main/gene_tree) | Rule | |
| l | ||
list_alignments (main/alignment) | Checkpoint | |
| m | ||
mafft (main/alignment) | Rule | |
missing_taxa (main/alignment) | Rule | |
min_seq_filter_orthofisher (main/orthofisher) | Checkpoint | |
| o | ||
orthofinder (main/orthofinder) | Rule | |
orthogroup_classification (main/orthofinder) | Checkpoint | |
orthofinder_report_components (main/orthofinder) | Rule | |
orthosnap (main/orthofinder) | Rule | |
orthofinder_all (main/orthofinder) | Checkpoint | |
orthofisher_input_generation (main/orthofisher) | Rule | |
orthofisher (main/orthofisher) | Checkpoint | |
| r | ||
rename_sequences (main/intake) | Rule | |
report (main/report) | Rule | |
| s | ||
supermatrix_alignment_summary (main/supermatrix) | Rule | |
supermatrix_iqtree (main/supermatrix) | Rule | |
supermatrix_ascii (main/supermatrix) | Rule | |
supermatrix_tree_render (main/supermatrix) | Rule | |
supermatrix_consensus_tree_render (main/supermatrix) | Rule | |
supertree_ascii (main/supertree) | Rule | |
supertree_render (main/supertree) | Rule | |
| t | ||
taxon_only (main/alignment) | Rule | |
thread_dna (main/alignment) | Rule | |
trim_alignments (main/alignment) | Rule | |
translate (main/intake) | Rule |