Documentation
User's Guide
Guide for the current development version of BAli-Phy:
Tutorial
Worked examples for BAli-Phy 4.3:
Function reference
Browse models, distributions, and functions, including their arguments, defaults, and examples. These entries describe the current development version.
Manual pages
These manuals describe the current development version.
Manual pages for tools
- alignment-cat
- alignment-chop-internal
- alignment-compare
- alignment-consensus
- alignment-distances
- alignment-draw
- alignment-find
- alignment-find-conserved
- alignment-gild
- 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