Documentation
User's Guide
Guide for BAli-Phy 4.3, updated with documentation improvements after release:
Tutorial
Worked examples for BAli-Phy 4.3:
Manual pages
Manual pages for tools
- alignment-cat
- alignment-chop-internal
- alignment-compare
- alignment-consensus
- alignment-convert
- alignment-distances
- alignment-draw
- alignment-find
- alignment-find-conserved
- alignment-gild
- alignment-identity
- alignment-indices
- alignment-info
- alignment-max
- alignment-smc
- alignment-thin
- alignment-translate
- alignments-diff
- bpy-subsample
- character-properties
- cut-range
- draw-graph
- draw-tree
- extract-ancestors
- joint-indels
- joint-parsimony
- mcon-tool
- mctree-mean-lengths
- model_P
- partitions-supported
- path-graph
- pickout
- statreport
- stats-cat
- stats-merge
- stats-select
- summarize-ancestors
- tree-mean-lengths
- tree-partitions
- tree-reroot
- tree-tool
- trees-bootstrap
- trees-consensus
- trees-distances
- trees-pair-distances
- trees-to-SRQ