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/assets/busco/index.html
q2_moshpit/assets/busco/css/styles.css
q2_moshpit/assets/busco/js/bootstrapMagic.js
q2_moshpit/busco/__init__.py
q2_moshpit/busco/busco.py
q2_moshpit/busco/utils.py
q2_moshpit/busco/tests/__init__.py
q2_moshpit/busco/tests/test_busco.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/all_batch_summaries_formatted.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/plot_as_dict.json
q2_moshpit/busco/tests/data/busco_output/sample1/batch_summary.txt
q2_moshpit/busco/tests/data/busco_output/sample2/batch_summary.txt
q2_moshpit/busco/tests/data/busco_output/sample3/batch_summary.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/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/_dbs.py
q2_moshpit/eggnog/_method.py
q2_moshpit/eggnog/_utils.py
q2_moshpit/eggnog/tests/__init__.py
q2_moshpit/eggnog/tests/test_dbs.py
q2_moshpit/eggnog/tests/test_method.py
q2_moshpit/eggnog/tests/data/README.md
q2_moshpit/eggnog/tests/data/random-db-1.fa
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/good_hits/test_tiny.emappper.seed_orthologs
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/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/random-db-1/ref_db.dmnd
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/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/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/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/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/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/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/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/5693d0e1-be8e-40ab-9427-94a0ffc62963.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags/7797bbd1-4f3c-4482-9828-fa4be13c9977.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags/8adb2c2f-bb49-4b1a-a9ac-daf985b35070.fasta
q2_moshpit/kraken2/tests/data/simulated-sequences/mags/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/partition/__init__.py
q2_moshpit/partition/annotations.py
q2_moshpit/partition/mags.py
q2_moshpit/partition/ortholog.py
q2_moshpit/partition/utils.py
q2_moshpit/partition/tests/__init__.py
q2_moshpit/partition/tests/test_annotations.py
q2_moshpit/partition/tests/test_mags.py
q2_moshpit/partition/tests/test_utils.py
q2_moshpit/partition/tests/data/annotations/a/a.annotations
q2_moshpit/partition/tests/data/annotations/b/b.annotations
q2_moshpit/partition/tests/data/annotations/c/c.annotations
q2_moshpit/partition/tests/data/annotations/collated/a.annotations
q2_moshpit/partition/tests/data/annotations/collated/b.annotations
q2_moshpit/partition/tests/data/annotations/collated/c.annotations
q2_moshpit/partition/tests/data/collated/feature_data/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/partition/tests/data/collated/feature_data/fb0bc871-04f6-486b-a10e-8e0cb66f8de3.fasta
q2_moshpit/partition/tests/data/collated/sample_data/MANIFEST
q2_moshpit/partition/tests/data/collated/sample_data/sample1/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/partition/tests/data/collated/sample_data/sample1/fb0bc871-04f6-486b-a10e-8e0cb66f8de3.fasta
q2_moshpit/partition/tests/data/collated/sample_data/sample2/d65a71fa-4279-4588-b937-0747ed5d604d.fasta
q2_moshpit/partition/tests/data/partitioned/feature_data/mag1/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/partition/tests/data/partitioned/feature_data/mag2/fb0bc871-04f6-486b-a10e-8e0cb66f8de3.fasta
q2_moshpit/partition/tests/data/partitioned/sample_data/mag1/MANIFEST
q2_moshpit/partition/tests/data/partitioned/sample_data/mag1/sample1/24dee6fe-9b84-45bb-8145-de7b092533a1.fasta
q2_moshpit/partition/tests/data/partitioned/sample_data/mag1/sample1/fb0bc871-04f6-486b-a10e-8e0cb66f8de3.fasta
q2_moshpit/partition/tests/data/partitioned/sample_data/mag2/MANIFEST
q2_moshpit/partition/tests/data/partitioned/sample_data/mag2/sample2/d65a71fa-4279-4588-b937-0747ed5d604d.fasta
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_0_mag/empty.txt
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/md5/a.txt
q2_moshpit/tests/data/md5/b.txt