Added
- Added CLI boolean handling to improve command-line interface usability.
- Added new pytests for CLI to ensure correct handling of booleans.
- Updated the README to reflect the new pytest additions.
- Updated CI/CD pipelines to accommodate pytest changes.
Changed
- Improved input_type value check mechanism to use .lower() before checking against values 'vcf' or 'matrix'.
- Updated dependency from PyPDF2 to pypdf to increase compatibility and resolve installation issues on bioconda.