LICENSE
MANIFEST.in
README.md
setup.cfg
setup.py
versioneer.py
q2_moshpit/__init__.py
q2_moshpit/_examples.py
q2_moshpit/_utils.py
q2_moshpit/_version.py
q2_moshpit/citations.bib
q2_moshpit/plugin_setup.py
q2_moshpit.egg-info/PKG-INFO
q2_moshpit.egg-info/SOURCES.txt
q2_moshpit.egg-info/dependency_links.txt
q2_moshpit.egg-info/entry_points.txt
q2_moshpit.egg-info/not-zip-safe
q2_moshpit.egg-info/top_level.txt
q2_moshpit/abundance/__init__.py
q2_moshpit/abundance/abundance.py
q2_moshpit/abundance/tests/__init__.py
q2_moshpit/abundance/tests/test_abundance.py
q2_moshpit/abundance/tests/data/mag-length.tsv
q2_moshpit/abundance/tests/data/mag-index/index.1.bt2
q2_moshpit/abundance/tests/data/mag-index/index.2.bt2
q2_moshpit/abundance/tests/data/mag-index/index.3.bt2
q2_moshpit/abundance/tests/data/mag-index/index.4.bt2
q2_moshpit/abundance/tests/data/mag-index/index.rev.1.bt2
q2_moshpit/abundance/tests/data/mag-index/index.rev.2.bt2
q2_moshpit/abundance/tests/data/mag-sequences/2317a4bd-778d-46fa-901c-88428b2b863e.fasta
q2_moshpit/abundance/tests/data/mag-sequences/890676ee-1310-477d-b713-457ef661b8f3.fasta
q2_moshpit/abundance/tests/data/reads/sample1_00_L001_R1_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample1_00_L001_R2_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample2_00_L001_R1_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample2_00_L001_R2_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample3_00_L001_R1_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample3_00_L001_R2_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample4_00_L001_R1_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample4_00_L001_R2_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample5_00_L001_R1_001.fastq.gz
q2_moshpit/abundance/tests/data/reads/sample5_00_L001_R2_001.fastq.gz
q2_moshpit/abundance/tests/data/reads-mapped/sample1_alignment.bam
q2_moshpit/abundance/tests/data/reads-mapped/sample2_alignment.bam
q2_moshpit/abundance/tests/data/reads-mapped/sample3_alignment.bam
q2_moshpit/abundance/tests/data/reads-mapped/sample4_alignment.bam
q2_moshpit/abundance/tests/data/reads-mapped/sample5_alignment.bam
q2_moshpit/assets/busco/css/styles.css
q2_moshpit/assets/busco/feature_data/detailed_view.html
q2_moshpit/assets/busco/feature_data/index.html
q2_moshpit/assets/busco/feature_data/table.html
q2_moshpit/assets/busco/js/bootstrapMagic.js
q2_moshpit/assets/busco/sample_data/detailed_view.html
q2_moshpit/assets/busco/sample_data/index.html
q2_moshpit/assets/busco/sample_data/table.html
q2_moshpit/busco/__init__.py
q2_moshpit/busco/busco.py
q2_moshpit/busco/database.py
q2_moshpit/busco/partition.py
q2_moshpit/busco/plots_detailed.py
q2_moshpit/busco/plots_summary.py
q2_moshpit/busco/utils.py
q2_moshpit/busco/tests/__init__.py
q2_moshpit/busco/tests/test_busco_feature_data.py
q2_moshpit/busco/tests/test_busco_sample_data.py
q2_moshpit/busco/tests/test_fetch_busco.py
q2_moshpit/busco/tests/test_partition.py
q2_moshpit/busco/tests/test_plots.py
q2_moshpit/busco/tests/test_utils.py
q2_moshpit/busco/tests/data/MANIFEST
q2_moshpit/busco/tests/data/all_batch_summaries.csv
q2_moshpit/busco/tests/data/batch_summary_sample1.txt
q2_moshpit/busco/tests/data/batch_summary_sample2.txt
q2_moshpit/busco/tests/data/batch_summary_sample3.txt
q2_moshpit/busco/tests/data/feature_table_feature_data.json
q2_moshpit/busco/tests/data/feature_table_sample_data.json
q2_moshpit/busco/tests/data/busco_db/busco_downloads/file_versions.tsv
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/ancestral
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/ancestral_variants
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/dataset.cfg
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/lengths_cutoff
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/links_to_ODB10.txt
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/refseq_db.faa.gz
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/refseq_db.faa.gz.md5
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/scores_cutoff
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/hmms/aaaaa.hmm
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/hmms/bbbbb.hmm
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/info/ogs.id.info
q2_moshpit/busco/tests/data/busco_db/busco_downloads/lineages/lineage_1/info/species.info
q2_moshpit/busco/tests/data/busco_db/busco_downloads/placement_files/list_of_reference_markers.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/tests/data/busco_db/busco_downloads/placement_files/mapping_taxid-lineage.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/tests/data/busco_db/busco_downloads/placement_files/mapping_taxids-busco_dataset_name.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/tests/data/busco_db/busco_downloads/placement_files/supermatrix.aln.eukaryota_odb10.2019-12-16.faa
q2_moshpit/busco/tests/data/busco_db/busco_downloads/placement_files/tree.eukaryota_odb10.2019-12-16.nwk
q2_moshpit/busco/tests/data/busco_db/busco_downloads/placement_files/tree_metadata.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/tests/data/busco_results/collated/busco_results.tsv
q2_moshpit/busco/tests/data/busco_results/sample1/busco_results.tsv
q2_moshpit/busco/tests/data/busco_results/sample2/busco_results.tsv
q2_moshpit/busco/tests/data/mags/MANIFEST
q2_moshpit/busco/tests/data/mags/sample1/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/busco/tests/data/mags/sample1/ca7012fc-ba65-40c3-84f5-05aa478a7585.fasta
q2_moshpit/busco/tests/data/mags/sample1/fb0bc871-04f6-486b-a10e-8e0cb66f8de3.fasta
q2_moshpit/busco/tests/data/mags/sample2/d65a71fa-4279-4588-b937-0747ed5d604d.fasta
q2_moshpit/busco/tests/data/mags/sample2/db03f8b6-28e1-48c5-a47c-9c65f38f7357.fasta
q2_moshpit/busco/tests/data/mags/sample2/fa4d7420-d0a4-455a-b4d7-4fa66e54c9bf.fasta
q2_moshpit/busco/tests/data/summaries/all_renamed_with_lengths.csv
q2_moshpit/busco/tests/data/summaries/all_renamed_with_lengths_feature_data.csv
q2_moshpit/busco/tests/data/summaries/batch_summary_1.txt
q2_moshpit/busco/tests/data/summaries/batch_summary_2.txt
q2_moshpit/busco/types/__init__.py
q2_moshpit/busco/types/_format.py
q2_moshpit/busco/types/_transformer.py
q2_moshpit/busco/types/_type.py
q2_moshpit/busco/types/tests/__init__.py
q2_moshpit/busco/types/tests/test_format.py
q2_moshpit/busco/types/tests/test_transformer.py
q2_moshpit/busco/types/tests/test_type.py
q2_moshpit/busco/types/tests/data/busco_results.tsv
q2_moshpit/busco/types/tests/data/busco_results_broken_header.tsv
q2_moshpit/busco/types/tests/data/busco_results_broken_values.tsv
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/file_versions.tsv
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/ancestral_variants
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/dataset.cfg
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/lengths_cutoff
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/links_to_ODB10.txt
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/refseq_db.faa.gz
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/refseq_db.faa.gz.md5
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/scores_cutoff
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/hmms/aaaaa.hmm
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/hmms/bbbbb.hmm
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/info/species.info
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/prfl/aaaaa.prfl
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/lineages/lineage_1/prfl/ggggg.prfl
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/placement_files/list_of_reference_markers.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/placement_files/mapping_taxid-lineage.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/placement_files/mapping_taxids-busco_dataset_name.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/placement_files/supermatrix.aln.eukaryota_odb10.2019-12-16.faa
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/placement_files/tree.eukaryota_odb10.2019-12-16.nwk
q2_moshpit/busco/types/tests/data/busco_db_invalid/busco_downloads/placement_files/tree_metadata.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/file_versions.tsv
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/ancestral
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/ancestral_variants
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/dataset.cfg
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/lengths_cutoff
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/links_to_ODB10.txt
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/refseq_db.faa.gz
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/refseq_db.faa.gz.md5
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/scores_cutoff
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/hmms/aaaaa.hmm
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/hmms/bbbbb.hmm
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/info/ogs.id.info
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/info/species.info
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/prfl/aaaaa.prfl
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/lineages/lineage_1/prfl/ggggg.prfl
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/placement_files/list_of_reference_markers.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/placement_files/mapping_taxid-lineage.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/placement_files/mapping_taxids-busco_dataset_name.eukaryota_odb10.2019-12-16.txt
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/placement_files/supermatrix.aln.eukaryota_odb10.2019-12-16.faa
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/placement_files/tree.eukaryota_odb10.2019-12-16.nwk
q2_moshpit/busco/types/tests/data/busco_db_valid/busco_downloads/placement_files/tree_metadata.eukaryota_odb10.2019-12-16.txt
q2_moshpit/dereplication/__init__.py
q2_moshpit/dereplication/derep.py
q2_moshpit/dereplication/tests/__init__.py
q2_moshpit/dereplication/tests/test_dereplication.py
q2_moshpit/dereplication/tests/data/busco_results.tsv
q2_moshpit/dereplication/tests/data/distance-matrix.tsv
q2_moshpit/dereplication/tests/data/pa-table.csv
q2_moshpit/dereplication/tests/data/mags/MANIFEST
q2_moshpit/dereplication/tests/data/mags-unique/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/dereplication/tests/data/mags-unique/ca7012fc-ba65-40c3-84f5-05aa478a7585.fasta
q2_moshpit/dereplication/tests/data/mags-unique/d65a71fa-4279-4588-b937-0747ed5d604d.fasta
q2_moshpit/dereplication/tests/data/mags/sample1/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/dereplication/tests/data/mags/sample1/ca7012fc-ba65-40c3-84f5-05aa478a7585.fasta
q2_moshpit/dereplication/tests/data/mags/sample1/fb0bc871-04f6-486b-a10e-8e0cb66f8de3.fasta
q2_moshpit/dereplication/tests/data/mags/sample2/d65a71fa-4279-4588-b937-0747ed5d604d.fasta
q2_moshpit/dereplication/tests/data/mags/sample2/db03f8b6-28e1-48c5-a47c-9c65f38f7357.fasta
q2_moshpit/dereplication/tests/data/mags/sample2/fa4d7420-d0a4-455a-b4d7-4fa66e54c9bf.fasta
q2_moshpit/eggnog/__init__.py
q2_moshpit/eggnog/annotation.py
q2_moshpit/eggnog/dbs.py
q2_moshpit/eggnog/utils.py
q2_moshpit/eggnog/orthologs/__init__.py
q2_moshpit/eggnog/orthologs/common.py
q2_moshpit/eggnog/orthologs/diamond.py
q2_moshpit/eggnog/orthologs/hmmer.py
q2_moshpit/eggnog/tests/__init__.py
q2_moshpit/eggnog/tests/test_annotation.py
q2_moshpit/eggnog/tests/test_dbs.py
q2_moshpit/eggnog/tests/test_orthologs.py
q2_moshpit/eggnog/tests/test_utils.py
q2_moshpit/eggnog/tests/data/README.md
q2_moshpit/eggnog/tests/data/random-db-1.fa
q2_moshpit/eggnog/tests/data/annotations/1e9ffc02-0847-4f2c-b1e2-3965a4a78b15.emapper.annotations
q2_moshpit/eggnog/tests/data/annotations/62e07985-2556-435c-9e02-e7f94b8df07d.emapper.annotations
q2_moshpit/eggnog/tests/data/annotations/ab4f5ff0-45a1-41c9-9711-620765d5e92c.emapper.annotations
q2_moshpit/eggnog/tests/data/annotations/b9b4ab71-8e5f-48d7-bb23-df2726df1393.emapper.annotations
q2_moshpit/eggnog/tests/data/build_eggnog_diamond_db/e5.taxid_info.tsv
q2_moshpit/eggnog/tests/data/contig-sequences-1/s1_contigs.fa
q2_moshpit/eggnog/tests/data/contig-sequences-1/s2_contigs.fa
q2_moshpit/eggnog/tests/data/eggnog_db/eggnog.db
q2_moshpit/eggnog/tests/data/eggnog_db/eggnog.taxa.db
q2_moshpit/eggnog/tests/data/eggnog_db/eggnog.taxa.db.traverse.pkl
q2_moshpit/eggnog/tests/data/expected/test_output.emapper.annotations
q2_moshpit/eggnog/tests/data/fastas/1FIJ2.fa
q2_moshpit/eggnog/tests/data/fastas/1FIJ3.fa
q2_moshpit/eggnog/tests/data/fastas/1FIJ4.fa
q2_moshpit/eggnog/tests/data/good_hits/test_tiny.emappper.seed_orthologs
q2_moshpit/eggnog/tests/data/hits/2a33ffd0-b5b5-4fa7-8940-5c9261ddd8c1.emapper.seed_orthologs
q2_moshpit/eggnog/tests/data/hits/3fd18b95-de4a-49c0-a807-73af3029fd73.emapper.seed_orthologs
q2_moshpit/eggnog/tests/data/hits/7ee78c26-69d7-40ef-bb37-16203bf786ec.emapper.seed_orthologs
q2_moshpit/eggnog/tests/data/hmmer/fastas/1/1FKBE.raw_alg.faa.gz
q2_moshpit/eggnog/tests/data/hmmer/fastas/1/1FKBY.raw_alg.faa.gz
q2_moshpit/eggnog/tests/data/hmmer/fastas/1/1FKDQ.raw_alg.faa.gz
q2_moshpit/eggnog/tests/data/hmmer/hmms/1/1FJNZ.hmm
q2_moshpit/eggnog/tests/data/hmmer/hmms/1/1FKBE.hmm
q2_moshpit/eggnog/tests/data/hmmer/hmms/1/1FKDQ.hmm
q2_moshpit/eggnog/tests/data/idmap/1100069.hmm.idmap
q2_moshpit/eggnog/tests/data/invalid_idmaps/1.hmm.idmap
q2_moshpit/eggnog/tests/data/invalid_idmaps/2.hmm.idmap
q2_moshpit/eggnog/tests/data/invalid_idmaps/3.hmm.idmap
q2_moshpit/eggnog/tests/data/invalid_idmaps/4.hmm.idmap
q2_moshpit/eggnog/tests/data/mag-sequences/194b1aca-9373-4298-ba5c-05b382d1f553.fa
q2_moshpit/eggnog/tests/data/mag-sequences/e1ba1d20-b466-4fef-ae19-6bf9c5c63d6f.fa
q2_moshpit/eggnog/tests/data/mag-sequences-per-sample/MANIFEST
q2_moshpit/eggnog/tests/data/mag-sequences-per-sample/sample1/194b1aca-9373-4298-ba5c-05b382d1f553.fa
q2_moshpit/eggnog/tests/data/mag-sequences-per-sample/sample1/e1ba1d20-b466-4fef-ae19-6bf9c5c63d6f.fa
q2_moshpit/eggnog/tests/data/mag-sequences-per-sample/sample2/8f40a3bc-14f0-426b-b2ba-7fb3b1cd0c02.fa
q2_moshpit/eggnog/tests/data/mag-sequences-per-sample/sample2/c6bd5123-35cf-473a-bebf-85cf544bcd48.fa
q2_moshpit/eggnog/tests/data/md5/a.txt
q2_moshpit/eggnog/tests/data/md5/a.txt.md5
q2_moshpit/eggnog/tests/data/md5/b.txt
q2_moshpit/eggnog/tests/data/pressed_hmm/1100069.hmm.h3f
q2_moshpit/eggnog/tests/data/pressed_hmm/1100069.hmm.h3i
q2_moshpit/eggnog/tests/data/pressed_hmm/1100069.hmm.h3m
q2_moshpit/eggnog/tests/data/pressed_hmm/1100069.hmm.h3p
q2_moshpit/eggnog/tests/data/random-db-1/ref_db.dmnd
q2_moshpit/eggnog/tests/data/valid_idmaps/bacteria.hmm.idmap
q2_moshpit/eggnog/types/__init__.py
q2_moshpit/eggnog/types/_format.py
q2_moshpit/eggnog/types/_type.py
q2_moshpit/eggnog/types/tests/__init__.py
q2_moshpit/eggnog/types/tests/test_format.py
q2_moshpit/eggnog/types/tests/test_types.py
q2_moshpit/filtering/__init__.py
q2_moshpit/filtering/filter_mags.py
q2_moshpit/filtering/filter_pangenome.py
q2_moshpit/filtering/tests/__init__.py
q2_moshpit/filtering/tests/test_filter.py
q2_moshpit/filtering/tests/data/MANIFEST
q2_moshpit/filtering/tests/data/metadata-derep.tsv
q2_moshpit/filtering/tests/data/metadata-sample.tsv
q2_moshpit/filtering/tests/data/mags/MANIFEST
q2_moshpit/filtering/tests/data/mags/sample1/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/filtering/tests/data/mags/sample2/d65a71fa-4279-4588-b937-0747ed5d604d.fasta
q2_moshpit/filtering/tests/data/mags/sample2/db03f8b6-28e1-48c5-a47c-9c65f38f7357.fasta
q2_moshpit/filtering/tests/data/pangenome/combined.fasta
q2_moshpit/filtering/tests/data/pangenome/grch38.fasta
q2_moshpit/filtering/tests/data/pangenome/pangenome.fasta
q2_moshpit/kaiju/__init__.py
q2_moshpit/kaiju/classification.py
q2_moshpit/kaiju/database.py
q2_moshpit/kaiju/tests/__init__.py
q2_moshpit/kaiju/tests/test_classification.py
q2_moshpit/kaiju/tests/test_database.py
q2_moshpit/kaiju/tests/data/kaiju-ft-ok.csv
q2_moshpit/kaiju/tests/data/kaiju-table.tsv
q2_moshpit/kaiju/tests/data/kaiju-taxonomy-ok.csv
q2_moshpit/kaiju/tests/data/taxa-map.json
q2_moshpit/kaiju/tests/data/paired-end/MANIFEST
q2_moshpit/kaiju/tests/data/paired-end/reads1_R1.fastq.gz
q2_moshpit/kaiju/tests/data/paired-end/reads1_R2.fastq.gz
q2_moshpit/kaiju/tests/data/paired-end/reads2_R1.fastq.gz
q2_moshpit/kaiju/tests/data/paired-end/reads2_R2.fastq.gz
q2_moshpit/kaiju/tests/data/paired-end-casava/reads1_0_L001_R1_001.fastq.gz
q2_moshpit/kaiju/tests/data/paired-end-casava/reads1_0_L001_R2_001.fastq.gz
q2_moshpit/kaiju/tests/data/paired-end-casava/reads2_0_L001_R1_001.fastq.gz
q2_moshpit/kaiju/tests/data/paired-end-casava/reads2_0_L001_R2_001.fastq.gz
q2_moshpit/kaiju/tests/data/single-end/MANIFEST
q2_moshpit/kaiju/tests/data/single-end/reads1_R1.fastq.gz
q2_moshpit/kaiju/tests/data/single-end/reads2_R1.fastq.gz
q2_moshpit/kaiju/tests/data/single-end-casava/reads1_0_L001_R1_001.fastq.gz
q2_moshpit/kaiju/tests/data/single-end-casava/reads2_0_L001_R1_001.fastq.gz
q2_moshpit/kraken2/__init__.py
q2_moshpit/kraken2/bracken.py
q2_moshpit/kraken2/classification.py
q2_moshpit/kraken2/database.py
q2_moshpit/kraken2/helpers.py
q2_moshpit/kraken2/select.py
q2_moshpit/kraken2/utils.py
q2_moshpit/kraken2/tests/__init__.py
q2_moshpit/kraken2/tests/test_bracken.py
q2_moshpit/kraken2/tests/test_classification.py
q2_moshpit/kraken2/tests/test_database.py
q2_moshpit/kraken2/tests/test_selection.py
q2_moshpit/kraken2/tests/test_utils.py
q2_moshpit/kraken2/tests/data/mag-taxa-1.csv
q2_moshpit/kraken2/tests/data/mag-taxa-2.csv
q2_moshpit/kraken2/tests/data/mag-taxa-3.csv
q2_moshpit/kraken2/tests/data/mag-taxa-4.csv
q2_moshpit/kraken2/tests/data/mag-taxa-5.csv
q2_moshpit/kraken2/tests/data/bracken-db/database100mers.kmer_distrib
q2_moshpit/kraken2/tests/data/bracken-db/database150mers.kmer_distrib
q2_moshpit/kraken2/tests/data/bracken-report/sample1.bracken.output.txt
q2_moshpit/kraken2/tests/data/bracken-report/sample1.table.csv
q2_moshpit/kraken2/tests/data/bracken-report/sample2.table.csv
q2_moshpit/kraken2/tests/data/bracken-report/samples-merged.csv
q2_moshpit/kraken2/tests/data/bracken-report-with-unclassified/samples-merged-corrected.csv
q2_moshpit/kraken2/tests/data/bracken-report-with-unclassified/samples-merged.csv
q2_moshpit/kraken2/tests/data/bracken-report-with-unclassified/taxonomy.csv
q2_moshpit/kraken2/tests/data/bracken-report-with-unclassified/kraken-reports/sample1.report.txt
q2_moshpit/kraken2/tests/data/bracken-report-with-unclassified/kraken-reports/sample2.report.txt
q2_moshpit/kraken2/tests/data/bracken-report/sample1/bracken.report.txt
q2_moshpit/kraken2/tests/data/db/hash.k2d
q2_moshpit/kraken2/tests/data/db/opts.k2d
q2_moshpit/kraken2/tests/data/db/taxo.k2d
q2_moshpit/kraken2/tests/data/duplicated-genus/SRR17000961-1.report.txt
q2_moshpit/kraken2/tests/data/duplicated-genus/SRR17000967-1.report.txt
q2_moshpit/kraken2/tests/data/kraken2-reports-select/kraken2_reads_table.json
q2_moshpit/kraken2/tests/data/kraken2-reports-select/kraken2_reads_table_filtered.json
q2_moshpit/kraken2/tests/data/kraken2-reports-select/kraken2_taxonomy.tsv
q2_moshpit/kraken2/tests/data/kraken2-reports-select/kraken2_taxonomy_filtered.tsv
q2_moshpit/kraken2/tests/data/kraken2-reports-select/samples/sample1.report.txt
q2_moshpit/kraken2/tests/data/kraken2-reports-select/samples/sample2.report.txt
q2_moshpit/kraken2/tests/data/kraken2-to-ncbi-tree/exp-tree1.txt
q2_moshpit/kraken2/tests/data/kraken2-to-ncbi-tree/example1/sample1/sample1.report.txt
q2_moshpit/kraken2/tests/data/mags-derep/3b72d1a7-ddb0-4dc7-ac36-080ceda04aaa.fasta
q2_moshpit/kraken2/tests/data/mags-derep/8894435a-c836-4c18-b475-8b38a9ab6c6b.fasta
q2_moshpit/kraken2/tests/data/mags/sample1/3b72d1a7-ddb0-4dc7-ac36-080ceda04aaa.fasta
q2_moshpit/kraken2/tests/data/mags/sample1/8894435a-c836-4c18-b475-8b38a9ab6c6b.fasta
q2_moshpit/kraken2/tests/data/mags/sample2/99e2f6c5-5811-4a31-a4de-65040c8197bd.fasta
q2_moshpit/kraken2/tests/data/outputs-mags/3b72d1a7-ddb0-4dc7-ac36-080ceda04aaa.output.txt
q2_moshpit/kraken2/tests/data/outputs-mags/8894435a-c836-4c18-b475-8b38a9ab6c6b.output.txt
q2_moshpit/kraken2/tests/data/paired-end/MANIFEST
q2_moshpit/kraken2/tests/data/paired-end/reads1_R1.fastq.gz
q2_moshpit/kraken2/tests/data/paired-end/reads1_R2.fastq.gz
q2_moshpit/kraken2/tests/data/paired-end/reads2_R1.fastq.gz
q2_moshpit/kraken2/tests/data/paired-end/reads2_R2.fastq.gz
q2_moshpit/kraken2/tests/data/reports-mags/3b72d1a7-ddb0-4dc7-ac36-080ceda04aaa.report.txt
q2_moshpit/kraken2/tests/data/reports-mags/8894435a-c836-4c18-b475-8b38a9ab6c6b.report.txt
q2_moshpit/kraken2/tests/data/reports-mags-unclassified-missing-frac/3b72d1a7-ddb0-4dc7-ac36-080ceda04aaa.report.txt
q2_moshpit/kraken2/tests/data/reports-mags-unclassified-missing-frac/8894435a-c836-4c18-b475-8b38a9ab6c6b.report.txt
q2_moshpit/kraken2/tests/data/reports-mags-unclassified-wrong-frac/3b72d1a7-ddb0-4dc7-ac36-080ceda04aaa.report.txt
q2_moshpit/kraken2/tests/data/reports-mags-unclassified-wrong-frac/8894435a-c836-4c18-b475-8b38a9ab6c6b.report.txt
q2_moshpit/kraken2/tests/data/seqs/dna-sequences.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/README.md
q2_moshpit/kraken2/tests/data/simulated-sequences/contigs/ba-mm-mixed_contigs.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/contigs/ba_contigs.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/contigs/mm_contigs.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/contigs/sa_contigs.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/contigs/se_contigs.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/MANIFEST
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/ba-mm-mixed_f_L001_R1_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/ba-mm-mixed_r_L001_R2_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/ba_f_L001_R1_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/ba_r_L001_R2_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/metadata.yml
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/mm_f_L001_R1_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/mm_r_L001_R2_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/nonsense_f_L001_R1_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/nonsense_r_L001_R2_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/sa_f_L001_R1_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/sa_r_L001_R2_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/se_f_L001_R1_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/formatted-reads/se_r_L001_R2_001.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/kraken2-db/hash.k2d
q2_moshpit/kraken2/tests/data/simulated-sequences/kraken2-db/opts.k2d
q2_moshpit/kraken2/tests/data/simulated-sequences/kraken2-db/taxo.k2d
q2_moshpit/kraken2/tests/data/simulated-sequences/mags-derep/5693d0e1-be8e-40ab-9427-94a0ffc62963.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags-derep/7797bbd1-4f3c-4482-9828-fa4be13c9977.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags-derep/8adb2c2f-bb49-4b1a-a9ac-daf985b35070.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags-derep/9231448e-b591-4afc-9d8a-5255b1a24f08.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags/sample1/5693d0e1-be8e-40ab-9427-94a0ffc62963.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags/sample1/8adb2c2f-bb49-4b1a-a9ac-daf985b35070.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags/sample2/7797bbd1-4f3c-4482-9828-fa4be13c9977.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags/sample2/9231448e-b591-4afc-9d8a-5255b1a24f08.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/MANIFEST
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/ba-R1.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/ba-R2.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/ba-mm-mixed-R1.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/ba-mm-mixed-R2.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/mm-R1.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/mm-R2.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/nonsense-R1.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/nonsense-R2.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/sa-R1.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/sa-R2.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/se-R1.fastq.gz
q2_moshpit/kraken2/tests/data/simulated-sequences/reads/se-R2.fastq.gz
q2_moshpit/kraken2/tests/data/single-end/MANIFEST
q2_moshpit/kraken2/tests/data/single-end/reads1_R1.fastq.gz
q2_moshpit/kraken2/tests/data/single-end/reads2_R1.fastq.gz
q2_moshpit/metabat2/__init__.py
q2_moshpit/metabat2/metabat2.py
q2_moshpit/metabat2/utils.py
q2_moshpit/metabat2/tests/__init__.py
q2_moshpit/metabat2/tests/test_metabat2.py
q2_moshpit/metabat2/tests/test_utils.py
q2_moshpit/metabat2/tests/data/bins-no-uuid/samp1/bin.1.fa
q2_moshpit/metabat2/tests/data/bins-no-uuid/samp1/bin.2.fa
q2_moshpit/metabat2/tests/data/bins-no-uuid/samp2/bin.1.fa
q2_moshpit/metabat2/tests/data/bins-no-uuid/samp2/bin.2.fa
q2_moshpit/metabat2/tests/data/bins-small/samp1/522775d4-b1c6-4ee3-8b47-cd990f17eb8b.fa
q2_moshpit/metabat2/tests/data/bins-small/samp1/684db670-6304-4f33-a0ea-7f570532e178.fa
q2_moshpit/metabat2/tests/data/bins-small/samp2/37356c23-b8db-4bbe-b4c9-d35e1cef615b.fa
q2_moshpit/metabat2/tests/data/bins-small/samp2/51c19113-31f0-4e4c-bbb3-b9df26b949f3.fa
q2_moshpit/metabat2/tests/data/bins/samp1/522775d4-b1c6-4ee3-8b47-cd990f17eb8b.fa
q2_moshpit/metabat2/tests/data/bins/samp1/684db670-6304-4f33-a0ea-7f570532e178.fa
q2_moshpit/metabat2/tests/data/bins/samp2/37356c23-b8db-4bbe-b4c9-d35e1cef615b.fa
q2_moshpit/metabat2/tests/data/bins/samp2/51c19113-31f0-4e4c-bbb3-b9df26b949f3.fa
q2_moshpit/metabat2/tests/data/contigs/samp1_contigs.fa
q2_moshpit/metabat2/tests/data/contigs/samp2_contigs.fa
q2_moshpit/metabat2/tests/data/depth/samp1_depth.txt
q2_moshpit/metabat2/tests/data/maps/samp1_alignment.bam
q2_moshpit/metabat2/tests/data/maps/samp2_alignment.bam
q2_moshpit/prodigal/__init__.py
q2_moshpit/prodigal/prodigal.py
q2_moshpit/prodigal/tests/__init__.py
q2_moshpit/prodigal/tests/test_prodigal.py
q2_moshpit/prodigal/tests/data/dir_with_1_mag/311112c9-7f8b-460c-9cad-3864af3148c2.fasta
q2_moshpit/prodigal/tests/data/dir_with_3_mag/311112c9-7f8b-460c-9cad-3864af3148c2.fasta
q2_moshpit/prodigal/tests/data/dir_with_3_mag/67123d05-b5ae-4a53-873b-727952881899.fasta
q2_moshpit/prodigal/tests/data/dir_with_3_mag/67392c6c-9f45-4c84-85f5-ae0bfc668892.fasta
q2_moshpit/tests/__init__.py
q2_moshpit/tests/test_utils.py
q2_moshpit/tests/data/mags-derep/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/tests/data/mags-derep/ca7012fc-ba65-40c3-84f5-05aa478a7585.fasta
q2_moshpit/tests/data/mags-derep/d65a71fa-4279-4588-b937-0747ed5d604d.fasta
q2_moshpit/tests/data/md5/a.txt
q2_moshpit/tests/data/md5/b.txt