├── .Rbuildignore ├── .github ├── .gitignore └── workflows │ ├── R-CMD-check.yaml │ └── rhub.yaml ├── .gitignore ├── BOLDconnectR.Rproj ├── DESCRIPTION ├── LICENSE ├── LICENSE.md ├── NAMESPACE ├── R ├── external.bold.analyze.align.R ├── external.bold.analyze.diversity.R ├── external.bold.analyze.map.R ├── external.bold.analyze.tree.R ├── external.bold.apikey.R ├── external.bold.data.summarize.R ├── external.bold.export.R ├── external.bold.fetch.R ├── external.bold.fields.info.R ├── external.bold.full.search.R ├── external.bold.public.search.R ├── globals.R ├── helper.align.msa.gen_ape_obj.R ├── helper.column_presets.R ├── helper.diversity.gencommmat.R ├── helper.fetch.bold.data.allids.R ├── helper.fetch.filters.R ├── helper.fetch.functions.4.datawrangling.R ├── helper.fetch.get.bin_project_dataset.pids.R ├── helper.fetch.json_data_download_&_json2df.R ├── helper.functions.4.bold.analyze.diversity.R ├── helper.functions.4.bold.data.summarize.R ├── helper.functions.4.bold.public.search.R └── test.data.R ├── README.Rmd ├── README.md ├── data └── test.data.rda └── man ├── base_url_parse.Rd ├── bold.analyze.align.Rd ├── bold.analyze.diversity.Rd ├── bold.analyze.map.Rd ├── bold.analyze.tree.Rd ├── bold.apikey.Rd ├── bold.data.summarize.Rd ├── bold.export.Rd ├── bold.fetch.Rd ├── bold.fetch.filters.Rd ├── bold.fields.info.Rd ├── bold.full.search.Rd ├── bold.public.search.Rd ├── figures ├── boldconnectr_logo.png ├── lifecycle-archived.svg ├── lifecycle-defunct.svg ├── lifecycle-deprecated.svg ├── lifecycle-experimental.svg ├── lifecycle-maturing.svg ├── lifecycle-questioning.svg ├── lifecycle-soft-deprecated.svg ├── lifecycle-stable.svg ├── lifecycle-superseded.svg └── summarize_data.png ├── gen.comm.mat.Rd ├── gen.msa.res.Rd ├── globals.Rd ├── id.files.Rd ├── post.api.res.fetch.Rd ├── presets.Rd ├── richness_profile.Rd ├── taxon_hierarchy_count.Rd └── test.data.Rd /.Rbuildignore: -------------------------------------------------------------------------------- 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