Snakemake Rules

a | c | g | l | m | o | r | s | t
 
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
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
report_taxa_presence (main/alignment) Rule
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