Replace the function names in the listed files

[Seyi007]

          [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 #7 (comment)

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]

@the-mayer createUndirectedDomainNetwork --> createUndirectedGenomicContextNetwork?