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Update correlation and placement-factorization doc
Add Newick tree output options
Extend tree output option information
Minor refinement in filefix option description
Refine output options and add merge command
Refine all option tables, and add filter
Add output prefix/suffix and compression
Add citation and gz doc
Update wiki to new global command structure.
Update CLI Formatter.
Add Placement-Factorization.
Minor fix in correlation doc.
Fix space around figures.
More space around figures.
Update subcommands by using new wiki command.
Updated Subcommand: correlation (markdown)
Created Subcommand: correlation (markdown)