LICENSE
README.md
pyproject.toml
omix/__init__.py
omix/cli.py
omix/config.py
omix/logging_utils.py
omix.egg-info/PKG-INFO
omix.egg-info/SOURCES.txt
omix.egg-info/dependency_links.txt
omix.egg-info/entry_points.txt
omix.egg-info/requires.txt
omix.egg-info/top_level.txt
omix/metadata/__init__.py
omix/metadata/base.py
omix/metadata/constants.py
omix/metadata/enrichment.py
omix/metadata/file_workflow.py
omix/metadata/manager.py
omix/metadata/ena/__init__.py
omix/metadata/ena/cache.py
omix/metadata/ena/enrichment_pipeline.py
omix/metadata/ena/fetcher.py
omix/metadata/ena/metadata.py
omix/metadata/ena/sample_parser.py
omix/metadata/ena/sra_fallback.py
omix/publications/__init__.py
omix/publications/base.py
omix/publications/cache.py
omix/publications/exceptions.py
omix/publications/fetcher.py
omix/publications/apis/__init__.py
omix/publications/apis/arxiv.py
omix/publications/apis/base.py
omix/publications/apis/basesearch.py
omix/publications/apis/bioarxiv.py
omix/publications/apis/core.py
omix/publications/apis/crossref.py
omix/publications/apis/datacite.py
omix/publications/apis/doaj.py
omix/publications/apis/europe_pmc.py
omix/publications/apis/lens.py
omix/publications/apis/mendeley.py
omix/publications/apis/ncbi.py
omix/publications/apis/plos.py
omix/publications/apis/semantic_scholar.py
omix/publications/apis/springer_nature.py
omix/publications/apis/unpaywall.py
omix/publications/apis/zenodo.py
omix/publications/extractors/__init__.py
omix/publications/extractors/cleaning.py
omix/publications/extractors/llm.py
omix/publications/extractors/pdf.py
omix/publications/extractors/webpage.py
omix/publications/extractors/omics/_16s.py
omix/publications/extractors/omics/__init__.py
omix/publications/extractors/omics/base.py
omix/validators/__init__.py
omix/validators/primer_db.py
omix/validators/probebase_builder.py