030f80ce907a9d1bc7f8eeee578effe6 *DESCRIPTION
9931edd84353ef180b92007b22745269 *NAMESPACE
8141d97bd82e8d758ea2b3aed95feedd *NEWS.md
a533c73a6d3b01aa0cfe02b836a43f25 *R/Deseq2_edgeR.R
08ca63e86ad9c42da5ff0b88edd603c6 *R/MiscMetabar-package.R
cdc5bfc8820e1008ace2858b28007bb1 *R/alpha_div_test.R
3f3a18ee38e047c3883900fee130f23b *R/beta_div_test.R
3c2a061035fbc1a716b8a215b4e766ff *R/blast.R
9e8beb918bb569e455e161f93dca29a8 *R/controls.R
ac1f17033255bba08f1a9a2547b188c4 *R/dada_phyloseq.R
7814d27addd567c079706ce8aaba9547 *R/data.R
016d85273979865ea8cb33e9f1e8e13c *R/deprecated.R
cb5d77ddc34def59407041b14ef52870 *R/funguild.R
a878ac12694ed2b59e1c2292e37b50ee *R/hill_divent.R
9f6065418951da23d49d5354f8a0e3f1 *R/hill_helpers.R
c540bc64cf700738707474f42038c6e9 *R/krona.R
94c5c4871c42fc22f24e0d6c2fd907ce *R/lulu.R
d5fdc2eea1783181d1b8a307fc05ee36 *R/miscellanous.R
7aaacd1473eae48faa4326983e7cd10e *R/mmseqs2.R
48b19b06ebaffbd3888c2717a8dd4f8a *R/normalize_pq.R
4fbc713a66a2765f750f6e1c70bdad5e *R/plot_functions.R
e39f2e1f0287234944a07c262ed25863 *R/speedyseq_functions.R
c1d1f592969f9da3bf29c6664ef144e4 *R/table_functions.R
395a6366fd1335d7adb53e0755a4cc8d *R/targets_misc.R
caa187bec0a8d35622dae9f357b28ac9 *R/taxonomy.R
a84b3a467ab285991b16ab83a36806c2 *R/vsearch.R
2fc555ef652feb0598e7265db370d2ff *README.md
533839446f70bde34a1050627ce80586 *build/partial.rdb
d2c6014eaa6071e800e7ca5a06fc2818 *build/vignette.rds
53eb12ed5d28072002c4a7eea5ee2ba9 *data/Tengeler2020_pq.rda
5c0d190277f0defbb4639c56c6997a23 *data/data_fungi.rda
49e77db1dda3396924a3f1de50c9df70 *data/data_fungi_mini.rda
6f72c55c73e6fd413658c9ebfd535f8a *data/data_fungi_sp_known.rda
679ba2cd35937474b5f61d4ca60e1c0b *inst/WORDLIST
b881429ce05760eeaba0ea9ef39eb7fa *inst/benchmark/function_timings.R
06125df504c69dac53a2ad5aacc63a54 *inst/benchmark/function_timings.csv
accb8a39e1ae3f93605565e0d74c7964 *inst/doc/MiscMetabar.R
5f5dc9dbf75af22b584ca3dbd9b052c3 *inst/doc/MiscMetabar.Rmd
63a476f4460cb59d87d32f902713607d *inst/doc/MiscMetabar.html
0a4090cd8cd21bdf85c1fb3eebc12d79 *inst/extdata/100_sp_UNITE_sh_general_release_dynamic.fasta
6d136dc8a3e6af8d8183801ad6f0804e *inst/extdata/100_sp_UNITE_sh_general_release_dynamic_dadaSpecies.fasta
da4dd9d16a04fa9a4511f1596373cc84 *inst/extdata/100_sp_UNITE_sh_general_release_dynamic_sintax.fasta
fee65c4e5f86e180ee3bf67f57a40535 *inst/extdata/dbase.ndb
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36176c89b3582efcb1a9a317b136d5d9 *inst/extdata/dbase.nin
4b915e5ae39d076aecda0ea7a7c9774e *inst/extdata/dbase.not
700e59a2748624ac58dfdc6df25fd06b *inst/extdata/dbase.nsq
166830b24f2e368b371410db2187bf7b *inst/extdata/dbase.ntf
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4467cea2f4d8929742d43cb9659479b9 *inst/extdata/ex_R2_001.fastq.gz
2c37bb412f37a0ed6dfd7b4e66997425 *inst/extdata/ex_little.fasta
2049d2f14ff894c6d3ae7e86af7d9210 *inst/extdata/mini_UNITE_fungi.fasta.gz
12be1267c092152c6fc220e3fb77dad8 *inst/extdata/sam_data.csv
f82d87beeaac7f37c9a9e15a7e097ca8 *man/LCBD_pq.Rd
bdd97bf68b8b0684b5219ba7751492e0 *man/MiscMetabar-deprecated.Rd
9319d60625484e241036cdbd347ee5df *man/MiscMetabar-package.Rd
6592605c3ecd2e7a974df379c2ba4aaa *man/SRS_curve_pq.Rd
d758b6e1a594f0251393ebce61b1db48 *man/Tengeler2020_pq.Rd
7558c05db80c4137af2380690256c6ea *man/accu_plot.Rd
45119fc352d408da26ead74a62c18bf7 *man/accu_plot_balanced_modality.Rd
c89ebe98b468a2ffd6ba142d27bb4516 *man/accu_samp_threshold.Rd
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32ae463fadeab4fe6275112e50a9927a *man/add_new_taxonomy_pq.Rd
49671e125ece1cc39e0dee45e190aa12 *man/adonis_pq.Rd
dff03c4b3756306b501813e84a99b652 *man/adonis_rarperm_pq.Rd
ed099a70a50a4a42133fc3f78822e6b1 *man/aldex_pq.Rd
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da1e9cb3904595c130a726dd1a41df63 *man/ancombc_pq.Rd
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a18a1377704105761dbcb401f18271b8 *man/as_binary_otu_table.Rd
8293f55bba76dba24cc0fa45ad4fc31a *man/assign_blastn.Rd
93aef5557630bc12069b9f72a066e976 *man/assign_dada2.Rd
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1c19b41ef28925118e17ce65e5e2b59a *man/assign_vsearch_lca.Rd
1822845f970bd0f11b20ba66cae36f81 *man/biplot_pq.Rd
427ac0d8e22c8643ab35afeb841c5dbc *man/blast_pq.Rd
87206a8ff6b7270a84f2dec0b25934fb *man/blast_to_derep.Rd
0fae2804ec47ce0e25517ed237ba6f2e *man/blast_to_phyloseq.Rd
8ecf64edae340d8d12f42f453ade7d3c *man/build_phytree_pq.Rd
3cee24f15d2d9cb3b1b9c0b28cd9e8f0 *man/chimera_detection_vs.Rd
9532be0c0243c8d1800bc41879d31542 *man/chimera_removal_vs.Rd
28c116d16e5356294fefa60a65371de8 *man/circle_pq.Rd
825501be34c246c1adeb785c8afa53b7 *man/clean_pq.Rd
fed9a8b1541b10aa2f542da6f4894b55 *man/compare_pairs_pq.Rd
a3e88fceada0c5025ade99523ee5e877 *man/count_seq.Rd
77a6345e24c5e990239c12e0cd73fbeb *man/css_pq.Rd
979f55dfc58d5dedc233a4e67ffda5fa *man/cutadapt_remove_primers.Rd
0904d30db420d5aee0f3b10a473e2d6d *man/data_fungi.Rd
6cdc488fff3b5ac86250d90b0012bb13 *man/data_fungi_mini.Rd
91aa6b449116d0e03b18b44ba0c4c579 *man/data_fungi_sp_known.Rd
096431f0074671fba99c90ba41288280 *man/diff_fct_diff_class.Rd
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c6ef48abcd4c624853095e228c19b7d7 *man/dist_pos_control.Rd
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2fd5f8e5b82f71f07889043da5d74680 *man/divent_hill_matrix_pq.Rd
ebc0af2fa81e036b7c1a04d57a122477 *man/fac2col.Rd
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aff8b29b2f52f96c3f148ad340f681f4 *man/filt_taxa_pq.Rd
904ee93baa9b203922e1fc57c40dfbac *man/filt_taxa_wo_NA.Rd
6fe25eda0976974bb6c165932f17a262 *man/filter_asv_blast.Rd
0931a19363dd7c6172c3c30ec7a8f280 *man/filter_trim.Rd
0eb32fd883490f51967a9bec4a8d414a *man/find_mmseqs2.Rd
a61e70064ec0f867b995d1ad201a30f2 *man/find_vsearch.Rd
db8b4ded213f8e3b30007be784d37ba3 *man/format2dada2.Rd
b5db47586eec99025b16474fabc7604c *man/format2dada2_species.Rd
212e14f7fe8f8039e9170aeb50cd356b *man/format2sintax.Rd
ac36f09882ef8864729ca768d44d0601 *man/formattable_pq.Rd
17f2e46b12be1d132cbe066a46f29cbd *man/funguild_assign.Rd
93e3617133c141d2685fdd8a8ff02938 *man/funky_color.Rd
34969d9be8a45617e45f0f02eb004b92 *man/get_file_extension.Rd
1f9eeb5a82a48815754b8ec87022a9fd *man/get_funguild_db.Rd
c57b15c14b165bf771b4d862d3d80914 *man/ggaluv_pq.Rd
4f0ed7c37215d045c1b15a223c7d7233 *man/ggbetween_pq.Rd
f7dc9ecae0ee7649356751bb9c87fe0f *man/ggscatt_pq.Rd
52037332731490138a9dfa0b868d0bfc *man/ggvenn_pq.Rd
c4b26629ff737a7099428c9621ddb4aa *man/glmutli_pq.Rd
41727624676ff1736fde2a37d50b08fe *man/gmpr_pq.Rd
03d72289c89625c57f6fe00379cdfaec *man/graph_test_pq.Rd
0abc7d45ea8356f6d6c19e2504a40c0a *man/hill_acc_pq.Rd
09909968eae2487566cfb8d6d72da9e6 *man/hill_bar_pq.Rd
677952a1b428b0a4860ee883efb8bd7a *man/hill_curves_pq.Rd
b8fb1660737bec98d8f318aaec925735 *man/hill_pq.Rd
d9651883b0363884cd816048bfbfd29a *man/hill_test_rarperm_pq.Rd
fd1abd0d1d681dd5cdabda0cc6974406 *man/hill_tuckey_pq.Rd
549856ce93037c36dc708a73520e4f6e *man/iNEXT_pq.Rd
ac6dec1421a6840effb5ed9363ea3aa3 *man/install_mmseqs2.Rd
e7f58e9c51221f4e7c5eab4b86be99be *man/install_vsearch.Rd
9c10d81f3b866c47b2666c75f50b20c7 *man/is_cutadapt_installed.Rd
d59cbb6689b76a877c0668de86b5126d *man/is_falco_installed.Rd
51944061d9accdfa75ff5bf768f2a571 *man/is_krona_installed.Rd
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3662ba0a4f2590020dc94b16c5bad81c *man/is_vsearch_installed.Rd
512875c0aaf0f3f2e85e059fac459550 *man/krona.Rd
ebfa84fb669ccb64c98323bade44e9db *man/learn_idtaxa.Rd
c91e07410cb2b89b5f16a6ecbbd2aacd *man/lefser_pq.Rd
6a29af2a93f394272bbc4d0ed5b2aaef *man/list_fastq_files.Rd
e384b22a0c4729d897ca2ff884c42b30 *man/lulu.Rd
075b24f47a1841954c3305aaf26890bc *man/lulu_pq.Rd
715e3a13e6411d7e0412042ce8e238e0 *man/mcknight_residuals_pq.Rd
18ae768a7bc0f52dd0ace1845defb9d9 *man/merge_krona.Rd
2852383e798ab076b826703e3d98717d *man/merge_samples2.Rd
abb131ed8753fc0e95566c0cf976444e *man/merge_taxa_vec.Rd
c477ed0c080e5326fcf2dca8f30b4a7c *man/mmseqs2_clustering.Rd
80c809aa466a6734646f3af42590e19e *man/multi_biplot_pq.Rd
1826afc1593dcd533a5f1a82571510bc *man/multipatt_pq.Rd
d556a6d3d188707a01833ecf644834a3 *man/multiplot.Rd
7b3a01b8ee2462fb5974b3dd8c1097c5 *man/multitax_bar_pq.Rd
0b51b1666b66604d91ade530697ae29d *man/mumu_pq.Rd
18c39f762d906d9f3788403109a50b7e *man/no_legend.Rd
8c346cfc2d453b8e706353c9b17d5e5d *man/normalize_prop_pq.Rd
0dae1a47b0921cd2dec7b6b367b5f5f7 *man/perc.Rd
9b94f8a40a9ee4e59d82b596d73f4def *man/phyloseq_to_edgeR.Rd
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6012e768d0669dab1ba38a5b31824d68 *man/plot_LCBD_pq.Rd
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2b8c2b5cd8f9f5ece357f6e955a33fed *man/plot_ancombc_pq.Rd
5955c76a14cc3c80856e8760f8bf1186 *man/plot_complexity_pq.Rd
7b0cf6496699c6f239467ddca268c2e7 *man/plot_deseq2_pq.Rd
00d1043fa803bf1144e80844b156e51a *man/plot_edgeR_pq.Rd
d1d83692ffd228bbd6e6cd21c092c01f *man/plot_guild_pq.Rd
8394cb1609de7be6f8c99b7efb30efbb *man/plot_mt.Rd
15c6a3aa6fb789fcc8e05784727b25a5 *man/plot_ordination_pq.Rd
23d973c86f691fef51ed7bad132eb45c *man/plot_refseq_extremity_pq.Rd
6eb8135e2df39b4339965ee1d257f68c *man/plot_refseq_pq.Rd
8a4ad3c51e9fce6cbc5f66467cdc8c7f *man/plot_seq_ratio_pq.Rd
c7fb09faa4eb5e50349b36d8ff4dc3b7 *man/plot_tax_pq.Rd
dcaf8e441318eaa9864de123676662d4 *man/plot_tsne_pq.Rd
9153ef7dac2f0dc205561ac5e34142e4 *man/plot_var_part_pq.Rd
11c341b3588b8fd6e68f46451486c644 *man/postcluster_pq.Rd
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87ab0370a5eaa759a01e5780da7fe708 *man/psmelt_samples_pq.Rd
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f91f35c245aef74070b9d4b632530454 *man/rarefy_sample_count_by_modality.Rd
33e85b323847ce2a79267f7420e4e0c5 *man/read_pq.Rd
5c7e57c05e1c9f5d30525e329fc43b43 *man/rename_samples.Rd
9ad0fe27a3601c27f9c44efd6b6c74e9 *man/rename_samples_otu_table.Rd
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89596ac65a4e105bfc93a74c09e6fb17 *man/reorder_taxa_pq.Rd
42789b95387f84b193a40100a19c68ce *man/resolve_vector_ranks.Rd
59557e0428a721cb53fc4fda16ebd3bd *man/ridges_pq.Rd
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9b1716971207e0b63a8ec2e28e8d735b *man/sam_data_matching_names.Rd
5178756cdd282c6c16c2b99bd4e74524 *man/sample_data_with_new_names.Rd
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21eff252648da1166c52db1a88348975 *man/search_exact_seq_pq.Rd
3558f8f3e0ada4fc688334ae880a22af *man/select_one_sample.Rd
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32bd97ac355e70728fc70c5add6c1a85 *man/srs_pq.Rd
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c91e7a2e344a9e634055ffac1eec5e0a *man/subset_samples_pq.Rd
1805ab671a30110d0ce0e6b2a296082a *man/subset_taxa_pq.Rd
c7a8a59a624bab6ed014af0b918563a4 *man/subset_taxa_tax_control.Rd
2a118a8028d8e0c5ea275e4a2225fd09 *man/summary_plot_pq.Rd
5d6fa54b0199ff757e060fff7e8fdc40 *man/swarm_clustering.Rd
590466fe34400e73c00e9e777bb328ad *man/tax_bar_pq.Rd
2f66a5fb61c77bfd0dc0663d862ba8d1 *man/tax_datatable.Rd
9e905f1459a87c56eaae0eec17e36bb6 *man/taxa_as_columns.Rd
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7303c53b77965fe8ff7d7c233c5a7fa9 *man/taxa_only_in_one_level.Rd
4483c70e38595f64cc1e316c94fe5612 *man/tbl_sum_samdata.Rd
4095972c781d4e62d707cde4d690a51a *man/tbl_sum_taxtable.Rd
d95ff68b3f1925d134a75b95243457c3 *man/tmm_pq.Rd
abf63a8325407d5390f09ffca2dd147f *man/track_wkflow.Rd
f794dcc19b61a8b82be3d61abe7433b9 *man/track_wkflow_samples.Rd
54af76bea86b634c655d984ffa154375 *man/transform_pq.Rd
b080fd19733ba6860c8e14cdc96c5202 *man/transp.Rd
e24be5b85e6d454767b9aca48867cf15 *man/treemap_pq.Rd
ea2b69b3ea5aa3831941611e2b69b5c9 *man/tsne_pq.Rd
05a2610ba1de7ec70a08c4de8624ddbc *man/umap_pq.Rd
2e845df8f0172fb8cf4912d796ddecac *man/unique_or_na.Rd
2284dad6a97b7ffae5a7d9a6bec8fea1 *man/unwanted_tax_patterns.Rd
1372e98af90eb995482b7c2aafc84cd7 *man/upset_pq.Rd
f3f687737f9f9b5f63ef9b80b8be6544 *man/upset_test_pq.Rd
7a685e84c5e423842a22839321a6bb05 *man/var_par_pq.Rd
2f614181422f8b07d4162678c83a0b55 *man/var_par_rarperm_pq.Rd
7030b9898e24082e5d430ebaa3987d0a *man/venn_pq.Rd
62742b4051bf2141ec9172b3685e13e9 *man/verify_pq.Rd
44f02d25fd816229f91f33231351e438 *man/verify_tax_table.Rd
1b6dfb3314c326a69926264cbb7ca4c3 *man/vs_search_global.Rd
7fa626e4e948b8485a1898c4c26d74e3 *man/vsearch_clustering.Rd
fd01e84f0f9fe9eb75dd26f7686d7d37 *man/vst_pq.Rd
e98f17c8242b5aab1acf24dac04dbcb9 *man/write_pq.Rd
6286c40603df000aaae222467ae8cd76 *tests/spelling.R
8d495b46c23dcd3bf8d8b5464ac471fe *tests/testthat.R
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