LICENSE
MANIFEST.in
README.md
setup.cfg
setup.py
versioneer.py
q2_fondue/__init__.py
q2_fondue/_version.py
q2_fondue/citations.bib
q2_fondue/get_all.py
q2_fondue/metadata.py
q2_fondue/plugin_setup.py
q2_fondue/query.py
q2_fondue/scraper.py
q2_fondue/sequences.py
q2_fondue/utils.py
q2_fondue.egg-info/PKG-INFO
q2_fondue.egg-info/SOURCES.txt
q2_fondue.egg-info/dependency_links.txt
q2_fondue.egg-info/entry_points.txt
q2_fondue.egg-info/not-zip-safe
q2_fondue.egg-info/top_level.txt
q2_fondue/entrezpy_clients/__init__.py
q2_fondue/entrezpy_clients/_efetch.py
q2_fondue/entrezpy_clients/_esearch.py
q2_fondue/entrezpy_clients/_pipelines.py
q2_fondue/entrezpy_clients/_sra_meta.py
q2_fondue/entrezpy_clients/_utils.py
q2_fondue/tests/__init__.py
q2_fondue/tests/_utils.py
q2_fondue/tests/test_efetch.py
q2_fondue/tests/test_esearch.py
q2_fondue/tests/test_get_all.py
q2_fondue/tests/test_metadata.py
q2_fondue/tests/test_query.py
q2_fondue/tests/test_scraper.py
q2_fondue/tests/test_sequences.py
q2_fondue/tests/test_sra_meta.py
q2_fondue/tests/test_utils.py
q2_fondue/tests/data/PRJNA734376_md.tsv
q2_fondue/tests/data/SRP123456_md.tsv
q2_fondue/tests/data/SRR123456.fastq
q2_fondue/tests/data/SRR123456.sra
q2_fondue/tests/data/SRR1234567_md.tsv
q2_fondue/tests/data/SRR123456_md.tsv
q2_fondue/tests/data/SRR123457.sra
q2_fondue/tests/data/SRR123457_1.fastq
q2_fondue/tests/data/SRR123457_2.fastq
q2_fondue/tests/data/SRR123457_md.tsv
q2_fondue/tests/data/SRS123456_md.tsv
q2_fondue/tests/data/SRX123456_md.tsv
q2_fondue/tests/data/bioproject_ids.tsv
q2_fondue/tests/data/bioproject_ids_w_doi.tsv
q2_fondue/tests/data/efetch_b1_response_runs.xml
q2_fondue/tests/data/efetch_b2_response_runs.xml
q2_fondue/tests/data/efetch_response_runs.xml
q2_fondue/tests/data/efetch_response_runs_single_item.xml
q2_fondue/tests/data/elink_response_single.json
q2_fondue/tests/data/esearch_response_multi_correct.json
q2_fondue/tests/data/esearch_response_multi_invalid.json
q2_fondue/tests/data/esearch_response_multi_mixed.json
q2_fondue/tests/data/esearch_response_single_ambiguous.json
q2_fondue/tests/data/esearch_response_single_correct.json
q2_fondue/tests/data/experiment_ids.tsv
q2_fondue/tests/data/experiment_ids_w_doi.tsv
q2_fondue/tests/data/failed_ids_no_doi.tsv
q2_fondue/tests/data/fasterq-dump-response.txt
q2_fondue/tests/data/metadata_from_xml.json
q2_fondue/tests/data/metadata_processed_multi.json
q2_fondue/tests/data/metadata_response_error.xml
q2_fondue/tests/data/metadata_response_multi.xml
q2_fondue/tests/data/metadata_response_single.xml
q2_fondue/tests/data/metadata_response_single_complex.xml
q2_fondue/tests/data/metadata_response_small.json
q2_fondue/tests/data/run_ids.tsv
q2_fondue/tests/data/run_ids_w_doi.tsv
q2_fondue/tests/data/run_ids_w_doi_2.tsv
q2_fondue/tests/data/sample_ids.tsv
q2_fondue/tests/data/sample_ids_w_doi.tsv
q2_fondue/tests/data/scraper_collections.json
q2_fondue/tests/data/scraper_item_multiple_dois.json
q2_fondue/tests/data/scraper_items_journalarticle.json
q2_fondue/tests/data/scraper_items_mix.json
q2_fondue/tests/data/scraper_items_no_attach.json
q2_fondue/tests/data/scraper_items_no_doi.json
q2_fondue/tests/data/sra-metadata-1.tsv
q2_fondue/tests/data/sra-metadata-2.tsv
q2_fondue/tests/data/sra-metadata-3.tsv
q2_fondue/tests/data/sra-metadata-4.tsv
q2_fondue/tests/data/sra-metadata-5.tsv
q2_fondue/tests/data/sra-metadata-6.tsv
q2_fondue/tests/data/sra-metadata-7.tsv
q2_fondue/tests/data/sra-metadata-8.tsv
q2_fondue/tests/data/sra-metadata-exp-1.tsv
q2_fondue/tests/data/sra-metadata-exp-2.tsv
q2_fondue/tests/data/sra-metadata-exp-3.tsv
q2_fondue/tests/data/sra-metadata-exp-4.tsv
q2_fondue/tests/data/sra-metadata-exp-5.tsv
q2_fondue/tests/data/sra-metadata-failed-ids.tsv
q2_fondue/tests/data/sra-metadata-mock.tsv
q2_fondue/tests/data/study_ids.tsv
q2_fondue/tests/data/study_ids_w_doi.tsv
q2_fondue/tests/data/testaccA.fastq
q2_fondue/tests/data/testaccA.sra
q2_fondue/tests/data/testaccA_00_L001_R1_001.fastq
q2_fondue/tests/data/testaccBC_md.tsv
q2_fondue/tests/data/testaccB_md.tsv
q2_fondue/tests/data/testaccC_md.tsv
q2_fondue/tests/data/testacc_00_L001_R1_001.fastq
q2_fondue/tests/data/testacc_00_L001_R2_001.fastq
q2_fondue/tests/data/testacc_1.fastq
q2_fondue/tests/data/testacc_2.fastq
q2_fondue/tests/data/empty/xxx_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/empty/xxx_00_L001_R2_001.fastq.gz
q2_fondue/tests/data/paired1/SEQID1_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/paired1/SEQID1_00_L001_R2_001.fastq.gz
q2_fondue/tests/data/paired1/SEQID2_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/paired1/SEQID2_00_L001_R2_001.fastq.gz
q2_fondue/tests/data/paired2/SEQID3_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/paired2/SEQID3_00_L001_R2_001.fastq.gz
q2_fondue/tests/data/paired2/SEQID4_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/paired2/SEQID4_00_L001_R2_001.fastq.gz
q2_fondue/tests/data/single1/SEQID1_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/single1/SEQID2_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/single2/SEQID3_00_L001_R1_001.fastq.gz
q2_fondue/tests/data/single2/SEQID4_00_L001_R1_001.fastq.gz
q2_fondue/types/__init__.py
q2_fondue/types/_format.py
q2_fondue/types/_transformer.py
q2_fondue/types/_type.py
q2_fondue/types/tests/__init__.py
q2_fondue/types/tests/test_types_formats_transformers.py
q2_fondue/types/tests/data/ncbi-ids-bioprojects.tsv
q2_fondue/types/tests/data/ncbi-ids-other.tsv
q2_fondue/types/tests/data/ncbi-ids-runs-doi.tsv
q2_fondue/types/tests/data/ncbi-ids-runs-no-doi.tsv
q2_fondue/types/tests/data/ncbi-ids-runs-wrong-id-header.tsv
q2_fondue/types/tests/data/ncbi-ids-runs.tsv
q2_fondue/types/tests/data/ncbi-ids-studies.tsv
q2_fondue/types/tests/data/ncbi-ids-wrong.tsv
q2_fondue/types/tests/data/sra-failed-ids-empty.tsv
q2_fondue/types/tests/data/sra-failed-ids.tsv
q2_fondue/types/tests/data/sra-metadata-missing-columns.tsv
q2_fondue/types/tests/data/sra-metadata-missing-ids.tsv
q2_fondue/types/tests/data/sra-metadata.tsv