class Something
  # define methods that might match some of the patterns
end

patterns = Klee.patterns do
  prefix("has_")
  prefix("verify_")
  infix("_in_")
  suffix("_value?")
end

gestalt = Klee[Something.new, patterns: patterns]
gestalt.trace(threshold: 6) # threshold for levenshtein distance between unusual method names
puts gestalt.plot
gestalt.trace(threshold: 9) # clear the plot and trace again
puts gestalt.plot
puts gestalt["unusual"] # unusual method names

class Something
  # define methods that have common word parts
end

concept = Klee.object_concepts(Something)

concept[4] #=> Set of words that appear at least 4 times
concept[2] #=> larger Set of words that appear at least 2 times

filtered = Klee.object_concepts(Something, modifiers: %i[fill_in_ hover_over_ _message])
filtered[4] #=> Set of concepts excluding any common modifiers

codebase = Klee.scan("app/**/*.rb", "lib/**/*.rb")

# See all concepts ranked by frequency
codebase.concepts.rank
# => {
#   "user" => { classes: Set["User", "UserSession"], methods: Set["current_user", "find_user"] },
#   "account" => { classes: Set["Account", "AccountManager"], methods: Set["account_balance"] },
#   ...
# }

# Drill into a specific concept
codebase.concepts[:account]
# => { classes: Set["Account", "AccountManager"], methods: Set["account_balance", "close_account"] }

# Filter noise with ignore list and threshold
codebase = Klee.scan("app/**/*.rb",
                     ignore: %i[new create get set find all],
                     threshold: 3)

codebase = Klee.scan("app/**/*.rb", threshold: 3)

# Pairwise co-occurrence (which objects appear together in files)
codebase.collaborators.pairs
# => { ["account", "user"] => 15, ["session", "user"] => 12, ... }

# Method-level co-occurrence (tighter coupling)
codebase.collaborators.pairs(scope: :method)
# => { ["account", "user"] => 8, ... }

# What collaborates with a specific object
codebase.collaborators.for(:user)
# => { "account" => 15, "session" => 12, "order" => 5 }

# Derived clusters (connected components)
codebase.collaborators.clusters
# => [Set["user", "account", "session"], Set["order", "payment", "invoice"]]