Refactored function names in R/summarize.R

[teddyCodex]

Description

Refactored specified function names in R/summarize.R based on issue #7

Original	Modified	User Facing
filter_by_doms	filterByDomains	✅
count_bycol	countByColumn	✅
elements2words	elements2Words
find_paralogs	findParalogs	✅
words2wc	words2WordCounts
filter_freq	filterByFrequency	✅
summarize_bylin	summarizeByLineage	✅
summ.DA.byLin	summarizeDomArch_ByLineage	✅
summ.DA	summarizeDomArch	✅
summ.GC.byDALin	summarizeGenContext_ByDomArchLineage	✅
summ.GC.byLin	summarizeGenContext_ByLineage	✅
summ.GC	summarizeGenContext	✅
total_counts	totalGenContextOrDomArchCounts	✅

Fixes issue #53

What kind of change(s) are included?

• Feature (adds or updates new capabilities)
• Bug fix (fixes an issue).
• Enhancement (adds functionality).
• Breaking change (these changes would cause existing functionality to not work as expected).

Checklist

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• I have performed a self-review of these additions (including spelling, grammar, and related).
• I have added comments to my code to help provide understanding.
• I have added a test which covers the code changes found within this PR.
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[teddyCodex]

@jananiravi @the-mayer file containing other locations where the functions are called or referenced.

function_occurrences #53.txt