Improve BMC struct correctness and other features #18
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camilogarciabotero
commented
Nov 7, 2023
camilogarciabotero
commented
- Refactor BioMarkovChain constructor and add helper functions
- Add assertion for row-stochasticity in transition probability matrix calculation
- Update argument type in perronfrobenius function.
- Export odds_ratio_matrix, log_odds_ratio_matrix, and log_odds_ratio_score in BioMarkovChains.jl
- Remove commented out code for amino acid transition count matrix
- Add constants for nucleic and dinucleic indexes but commented
- Add log_odds docs
- Refactor DNA conversion functions
- Fix DNA sequence index modifier in _int_to_dna function.
- Fix row-stochasticity assertion in transition_probability_matrix function
- Add TestItemRunner to Project.toml and extras
- Refactor code in src/utils.jl
- Refactor dnaseqprobability to be faster
- Refactor nucleic indexes to matrix representation
- Update perronfrobenius docs
- Export dnaseqprobability in BioMarkovChains.jl
- Remove unused constants and fix end of file in extended.jl
probability matrix calculation
and log_odds_ratio_score in BioMarkovChains.jl
transition count matrix
transition_probability_matrix function
camilogarciabotero
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camilogarciabotero
changed the title
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