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CSUBST Wiki

Current primary commands:

• csubst search (legacy alias: csubst analyze)
• csubst inspect
• csubst sites (legacy alias: csubst site)
• csubst simulate

Getting started

Installation and test run

Dependency

Preparing CSUBST inputs

Codon frequency estimation

Interpreting output files of csubst search

Interpreting output files of csubst sites

csubst sites modes

Inspect outputs and ancestral state tree plots

Parallel processing and performance tuning

Advanced analysis

Foreground specification

Analysis of higher-order convergence

Mapping convergent substitutions on protein structures

Inspecting spurious convergence using csubst sites

Simulating molecular convergence

Misc

How ω and ω_C are different

FAQ