961bed162216aef2cd538144cce66aa4 *DESCRIPTION
4722768d6f44efb8f024aae67ceaf121 *NAMESPACE
6bd6b443ab86a8b2052d61c96e726c0e *R/fields.R
ea4d57d346f2110d4fee3e98f0300149 *R/import_BOLD.R
b1007b6ee6f387e57bcfc6436a930f4b *R/import_NCBI.R
7e009e7f2da048dac063d6365bc5c2e6 *R/refdb-package.R
115deac8b3f9fd1ac18cdf58709dafea *R/refdb_checks.R
58b267bade72b461633f6ad10727dd32 *R/refdb_clean.R
573f21a8620eb8dbc9804139942ea03c *R/refdb_export.R
825ba12f6707ae7aec10af6d3acd4626 *R/refdb_fill_taxo.R
a304d959226a0531526ae490f2be9693 *R/refdb_filter.R
e15b85e2a7229f24bbcb179c3894569b *R/refdb_merge.R
2301aaca3df7ae683867bd6305e1a744 *R/refdb_ncbi_taxonomy.R
78fe97614549b11503fbd1ca7e9c1c2c *R/refdb_plots.R
cdc4b1e4a76b34146780eea128be08c1 *R/refdb_sample.R
69e819653c12846a92d3d4ba7c9eed8e *README.md
10d4d0da587dbc555cf0d7d958c3e60e *build/vignette.rds
f972f802106f5128aacdbda466d3983e *inst/doc/intro_refdb.R
a33be2a7b7277c79b55c66924e36fde8 *inst/doc/intro_refdb.Rmd
1b4249173bd8ecbfe40c84273048aecd *inst/doc/intro_refdb.html
81ebb06c721c39e5541793e29efc6c2d *inst/doc/ncbi_bold.Rmd
90f0c8a9da4f8901a6282be2876fa706 *inst/doc/ncbi_bold.html
c7bfd8f0f3b0f1c1a7ab6b36f7babd9c *inst/extdata/baetidae_bold.csv
3139e4f0ae07ced7819f9ab992c9160b *inst/extdata/ephem.csv
ced70adc0a4760eab302776ea6ac4e26 *inst/extdata/homogeneity.csv
18602170206ec310c4d153bf0b1f4bd6 *inst/extdata/yaml_bold.yml
fe3b6106b98d4eb1e58100e75e07c410 *inst/extdata/yaml_diatbarcode.yml
e129c492e805ecdbf28deff7f89c955e *inst/extdata/yaml_ncbi.yml
d574779f7db434a80d2fc47fa93635df *inst/extdata/yaml_pr2.yml
93c23522c98b42246b1a1cf34b1e0a8a *inst/rmd_templates/check_report.Rmd
528fe5cb3ceff53df6aa3ad70f08c97c *man/check_fields.Rd
9f1f48f98fbcc853e22a8cb4ab519cfd *man/fields_dbs.Rd
82971851ad510c3360d1a1a13f08b1ae *man/figures/logo.png
27678bbc45e7b7890284947f321607de *man/filter_scores.Rd
c889723d2df050fe38a767c413091dba *man/get_ncbi_taxonomy.Rd
175f72316b40a2834c69958f1f4fbfd5 *man/igraph_from_taxo.Rd
6a4137845e951256c2a477a1107c1a16 *man/make_ncbi_table.Rd
9d4c22fea3e5c07fd324eacf7a590fb3 *man/ncbi_taxo_rank.Rd
8c448dcb1f4f547b61042d45c868e9d5 *man/process_geo_ncbi.Rd
eebac52ee53b4533cd435b4760673d8f *man/refdb-package.Rd
95b98e796b631387b4669f73be99b0a7 *man/refdb_check_seq_conflict.Rd
6db394bf6ae58d9004fa48b9d453829f *man/refdb_check_seq_homogeneity.Rd
335b18b5d19f4c9f8259e2d5dfa2bfb9 *man/refdb_check_tax_conflict.Rd
37564d51b31cb611cb7cb7a7c9a96251 *man/refdb_check_tax_typo.Rd
6051ce47457c33ef90b04298f9227d88 *man/refdb_clean_seq_crop_primers.Rd
9bd27916d19c3daed7dd112038fd77a7 *man/refdb_clean_seq_remove_gaps.Rd
dbb77c5cf89738f0a52c3005b70ea184 *man/refdb_clean_seq_remove_sideN.Rd
d36835f7cccc68e5ad078e06479eb1ad *man/refdb_clean_tax_NA.Rd
173626eedc2edeb1476a33f9bb811f29 *man/refdb_clean_tax_harmonize_nomenclature.Rd
e0eea982373dd5d871d45a69f37ac5de *man/refdb_clean_tax_remove_blank.Rd
c739f2fed20b0e8fdf1e68c60aee4e16 *man/refdb_clean_tax_remove_extra.Rd
53e07b94567dfa370f7cafe1f323c726 *man/refdb_clean_tax_remove_subsp.Rd
c8d3b120c4d2a9bfae489ffa860be693 *man/refdb_clean_tax_remove_uncertainty.Rd
0de067ed470d1b2476d1af57c60ac090 *man/refdb_export_dada2.Rd
16032bae9e486e9dcfecd5f944916660 *man/refdb_export_idtaxa.Rd
6dd4601a6084e257db5e226673b9e668 *man/refdb_export_mothur.Rd
20225a8df44844c020aa3e43b5e50160 *man/refdb_fill_tax_downstream.Rd
76d44ffc452656a148f30d1b9496229c *man/refdb_fill_tax_upstream.Rd
2d8412632088cc42069d6ff6a135e1b1 *man/refdb_filter_ref_scope.Rd
43fe20d70a2df22d12ea1ace0d655730 *man/refdb_filter_seq_ambiguous.Rd
a3490036dfb2db3cefe0fcbb29bc2d88 *man/refdb_filter_seq_duplicates.Rd
32623988c5e91d4c2a2bde4b05f7ee4c *man/refdb_filter_seq_homopolymers.Rd
3670b236b75b6a6f218f8ab88961dbd0 *man/refdb_filter_seq_length.Rd
24de82b4c99bd30a7e6be07571ce45aa *man/refdb_filter_seq_primer.Rd
b74a7e2396a0d4ab075fa399cf8151f3 *man/refdb_filter_seq_stopcodon.Rd
e7927f3ad8c3d391858e0778da8e37f0 *man/refdb_filter_tax_na.Rd
a9dda817d5eba3abac8f82764a505337 *man/refdb_filter_tax_precision.Rd
7ac9dad04dc0f7ad06e22455acb64a3e *man/refdb_get_fields.Rd
0027239824fa6d7fb1e33b92baf490b0 *man/refdb_import_BOLD.Rd
1859eb655be8f3567deb04f66cf6e164 *man/refdb_import_NCBI.Rd
49adf1a8f0ed0a6222f499e4d1e5099f *man/refdb_merge.Rd
3e4940227f83cf32cf7d669c0b4a9c48 *man/refdb_plot_map.Rd
3ed3547fabcd0c05a89396c910ace0d3 *man/refdb_plot_seqlen_hist.Rd
1e93157acf2ddad899d986bc897a028b *man/refdb_plot_tax_barplot.Rd
6f6b4197476bc30f055589d75c0b957a *man/refdb_plot_tax_tree.Rd
ba6d749210ec37a927626ff0c2491b73 *man/refdb_plot_tax_treemap.Rd
6b672fad142e7b86f3a038d5b50041a8 *man/refdb_report.Rd
16fbdb02edaa7a2387455de485db0eaf *man/refdb_sample_tax.Rd
c3b7559be8f0c46d756bc95e2f575dec *man/refdb_set_fields.Rd
ca43ca6dd5c880852f4ce20b93659263 *man/refdb_set_ncbitax.Rd
8d5de8c25b1220d14669b3361b191c35 *man/refdb_write_fields.Rd
b9e7b6adb72fbdaa04d38ebf83d2c3af *man/valid_taxo_rank.Rd
380de5cf7cd6c7658a83eb05d623a141 *man/xml_extract.Rd
8bb6675aefcb1756b60d23f87a0e9d57 *tests/testthat.R
c7bfd8f0f3b0f1c1a7ab6b36f7babd9c *tests/testthat/data_baetidae_bold.csv
95d6a38a7d53b14c121f8685070d793f *tests/testthat/data_baetidae_bold_dada_species.fasta
c5ccc474aea08d6dc1c2890a8414b343 *tests/testthat/data_baetidae_bold_dada_taxo.fasta
6f72ca8f98671b1b98c8dd58312180a6 *tests/testthat/data_baetidae_bold_mothur.fasta
b01f4bea69c1cd24fa1355877d3badea *tests/testthat/data_baetidae_bold_mothur.txt
05ea807102218d2c2676ab93e397f6be *tests/testthat/data_fragilaria_ncbi.csv
ced70adc0a4760eab302776ea6ac4e26 *tests/testthat/data_tocheck_homogeneity.csv
cf05eb0df44e344de1128d68547800b6 *tests/testthat/data_toclean_bold.csv
c7bfd8f0f3b0f1c1a7ab6b36f7babd9c *tests/testthat/data_tofilter_bold.csv
18602170206ec310c4d153bf0b1f4bd6 *tests/testthat/data_yaml_bold.yml
ee6e5982bd859e9454919044ce2f4784 *tests/testthat/test_clean.R
a9134118cf1b6a298f7cbaef6a65a0e0 *tests/testthat/test_export.R
4e5aba94d7665dfc931f58d352686b6f *tests/testthat/test_fill.R
0f17590ae1a92fecf923ce619adc1c23 *tests/testthat/test_filter.R
b38422b3be89907f422cf7e1445e70ab *tests/testthat/test_import_web.R
6e74d0fc33df23ca9aef288411f51b41 *tests/testthat/test_merge.R
6d474fb2cb97fab06a1bb91f92258adf *tests/testthat/test_plots.R
d92ea5218715f8128f90b7cabf00189e *tests/testthat/test_reports.R
f8483543b5fdf81dbf852d8a79f70df2 *tests/testthat/test_setfields.R
a33be2a7b7277c79b55c66924e36fde8 *vignettes/intro_refdb.Rmd
81ebb06c721c39e5541793e29efc6c2d *vignettes/ncbi_bold.Rmd
f37b15edf4d80b794950e461aa444f81 *vignettes/ncbi_bold.Rmd.orig
