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JRaviLab / MolEvolvR

An R Package for characterizing proteins using molecular evolution and phylogeny
https://jravilab.github.io/MolEvolvR/
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Replace the function names in the listed files #49

Closed Seyi007 closed 1 month ago

Seyi007 commented 1 month ago 
          [R/msa.R](https://github.com/JRaviLab/MolEvolvR/blob/main/R/msa.R)
Original Modified User Facing
msa_pdf createMSA_PDF
generate_msa createMSA_Kalign
R/networks_domarch.R Original Modified User Facing
domain_network createDomainNetwork
BinaryDomainNetwork createBinaryDomainNetwork
R/networks_gencontext.R Original Modified User Facing
gc_undirected_network createUndirectedDomainNetwork
GenContextNetwork createGenomicContextNetwork

Originally posted by @the-mayer in https://github.com/JRaviLab/MolEvolvR/issues/7#issuecomment-2395126807

All updates should follow this format: Original Modified User Facing
original_function newFunction ✅

NOTE: Before beginning to work on a particular file, please check to see that @jananiravi has given the 👍 on the comment.

Please follow the contributing guidelines and create a new branch containing your changes. Commit your work, and submit a PR when ready for review.

Additionally, use the search in all files functionality in VS code, Rstudio, or any other text editor, and list all files the function is being called or used to be updated later.

jananiravi commented 1 month ago

@the-mayer createUndirectedDomainNetwork --> createUndirectedGenomicContextNetwork?