[DOC] Improving dox of module arg_parse.
[DOC] Improving documentation of FileOpenMode.
[DOC] Improving documentation of module vcf_io.
[DOC] Improving API documentation for seeds module.
[DOC] Improving documentation of UnionFind.
[DOC] Improved documentation of Shape classes.
[DOC] Various small dox improvements
[DOC] Improving documentation of Loop and LoopReverse.
[DOC] Improving documentation for some index shims.
[DOC] Improved documentation of the Repeat class.
[DOC] Minor improvements to API dox documentation.
[DOC] Various updates to API documentation.
[DOC] Advances in API documentation.
[DOC] Further improvements to API documentation.
[DOC] Small improvements of API docs.
[DOC] Adding in/out parameter to @param.
[DOC] Small improvements to API docs.
[DOC,INTERNAL] Improving dox templates.
Merging.
[DOC,FIX] Fixing sections.html for dox.