Post by Sergei on May 19th, 2005 at 12:16pm
Greetings,
I have added (the long overdue) models of di-nucleotide evolution in RNA stems. The models can be accessed via StandardAnalyses->AnalyzeDiNucData.bf
The models implemented include:
The input file is assumed to to consist of paired nucleotides which are arranged sequentially. You can try the models on the example RNA alignment in 'data'.
As a side benefit, result processing modules allow one to reconstruct ancestral RNA states.
Sergei
I have added (the long overdue) models of di-nucleotide evolution in RNA stems. The models can be accessed via StandardAnalyses->AnalyzeDiNucData.bf
The models implemented include:
- Modified Muse HKY85 (Multimedia File Viewing and Clickable Links are available for Registered Members only!! You need to
)
- Arbitraty 16 states reversible models, including RNA16A of Savill et al (Multimedia File Viewing and Clickable Links are available for Registered Members only!! You need to )
- The model of Schoniger and von Haessler (Multimedia File Viewing and Clickable Links are available for Registered Members only!! You need to ) improved to allow an arbitrary nucleotide substitution biases
The input file is assumed to to consist of paired nucleotides which are arranged sequentially. You can try the models on the example RNA alignment in 'data'.
As a side benefit, result processing modules allow one to reconstruct ancestral RNA states.
Sergei