Substitution-model and partition assumptions
Research context
postgraduate concept · conditional · As of 2026-10-10
Phylogenetic substitution models differ in equilibrium frequencies, transition rates and among-site mixtures.
Key knowledge
Phylogenetic substitution models differ in equilibrium frequencies, transition rates and among-site mixtures. Estimating a best fit within a candidate family does not establish that all sites share its assumptions or that saturation, recombination and alignment errors are absent.
Conditions and scope
- State partitioning, genetic code and frequency treatment; parameter-rich models can be weakly identifiable in short alignments.
Sources · 1
References
Sources retain their recorded scope. A source link alone does not establish verification of every statement.
Evidence and review
Substitution models: DNA/protein/codon assumptions, frequency estimation and mixture models (actual official method documentation)
2026-10-10 · Bounded author source inspection of substitution-model and partition assumptions, including the stated conditions; independent branch review is recorded separately.
Entry details
Permanent link to this entry ↗- Record identity
- res-bio-substitution-model
- Revision
- research.1
- Structured reference record
- Postgraduate & research reference