feat: improve lib type inference for SRA PE samples

[balajtimate]

Description

• Expand _evaluate_mate_relationship for library type relationship inference to align samples when two input files are given but both are deemed single
• Add additional library type states first_mate_assumed and second_mate_assumed, when the relationship is determined to be split_mates, refactor _update_relationship_type helper function to assign states types
• Update tests
• Lower lib_type_mates_cutoff to 0.85 based on results from feat: improve lib type relationship inference for SRA samples #160

Closes #160

Type of change

• New feature (non-breaking change which adds functionality)

Checklist

Please carefully read these items and tick them off if the statements are true
or do not apply.

• I have performed a self-review of my own code
• My code follows the existing coding style, lints and generates no new
  warnings
• I have added type annotations to all function/method signatures, and I
  have added type annotations for any local variables that are non-trivial,
  potentially ambiguous or might otherwise benefit from explicit typing.
• I have commented my code in hard-to-understand areas
• I have added ["Google-style docstrings"] to all new modules, classes,
  methods/functions or updated previously existing ones
• I have added tests that prove my fix is effective or that my feature
  works
• New and existing unit tests pass locally with my changes and I have not
  reduced the code coverage relative to the previous state
• I have updated any sections of the app's documentation that are affected
  by the proposed changes

If for some reason you are unable to tick off all boxes, please leave a
comment explaining the issue you are facing so that we can work on it
together.

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Comparison is base (7b65c43) 100.00% compared to head (241a47c) 100.00%.

Additional details and impacted files

@@            Coverage Diff            @@
##               dev      #161   +/-   ##
=========================================
  Coverage   100.00%   100.00%           
=========================================
  Files           13        13           
  Lines         1131      1143   +12     
=========================================
+ Hits          1131      1143   +12     

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[uniqueg]

LGTM :)