Code

Decoupling findorfs method#27

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camilogarciabotero merged 18 commits intomaincamilogarciabotero/GeneFinder.jl:mainfrom decouplingcamilogarciabotero/GeneFinder.jl:decouplingCopy head branch name to clipboardMar 30, 2024

+491-457

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Commits on Feb 14, 2024

• Comment some ideas for new implementations

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Commits on Mar 29, 2024

• Merge branch 'main' of https://github.com/camilogarciabotero/GeneFinder.jl into decoupling

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• Move get_orfs* methods to its own file

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• Update Julia version and package dependencies

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• Main step of decoupling. The findorfs method now gains a ::Function arg to call defined algorithms for ORF finding.

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• Update exports to file level

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• Update ORF outputs in docs and README

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• Add todos in getindex

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• Refactor naivefinder function and include getindextest.jl

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• Refactor naivefinder function to improve readability and performance

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• Fix return type annotation in findorfs function

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• Update .gitignore and add test Project.toml

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• Remove FASTX methods and make it lighter

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• Reduce precompilation workload

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• Remove commented out code and unused function

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• Remove unused function from utils.jl

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• Fix score field declaration in Gene and ORF structs

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• Add findermethod parameter to get_orfs_dna and get_orfs_aa functions

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