[FEATURE,TEST] Adding a new, updated realignment module including tests.
[DOC,NOP] Adding dox documentation, whitespace cleanup.
[INTERNAL] Refactorization of realign helper functions.
[DOX] Adding deprecation message to old reAlign() function.

Includes a fix such that links in @deprecated etc. are also translated.
[INTERNAL] Marking non-public functions and classes with underscores.
[COMMENT] Adding a TODO comment in realignment.
Merge pull request #269 from holtgrewe/feature/realignment

[FEATURE,TEST] Adding a new, updated realignment module including tests.