This package is considered a duplicate. The official version of this package is found at:https://sameerpadhye.r-universe.dev/BOLDconnectR

Package: BOLDconnectR 1.0.1

Sameer Padhye

BOLDconnectR: Retrieve, Transform and Analyze the Barcode of Life Data Systems Data

Facilitates retrieval, transformation and analysis of the data from the Barcode of Life Data Systems (BOLD) database <https://boldsystems.org/>. This package allows both public and private user data to be easily downloaded into the R environment using a variety of inputs such as: IDs (processid, sampleid), BINs, dataset codes, project codes, taxonomy, geography etc. It provides frictionless data conversion into formats compatible with other R-packages and third-party tools, as well as functions for sequence alignment & clustering, biodiversity analysis and spatial mapping.

Authors:Sameer Padhye [aut, cre], Liliana Ballesteros-Mejia [aut], Timothy Agda [aut], Jireh Agda [aut], Sujeevan Ratnasingham [aut]

BOLDconnectR_1.0.1.tar.gz
BOLDconnectR_1.0.1.zip(r-4.7-any)
BOLDconnectR_1.0.1.tar.gz(r-4.7-any)BOLDconnectR_1.0.1.tar.gz(r-4.6-any)
BOLDconnectR_1.0.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
BOLDconnectR/json (API)

# Install 'BOLDconnectR' in R:

install.packages('BOLDconnectR', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

test.data - Canadian spider data by Blagoev et al.
test.data2 - Example Barcode Core Data Model (BCDM) dataset

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

3.08 score 12 scripts 259 downloads 11 exports 155 dependencies

Last updated from:b4510741ca. Checks:4 OK, 1 ERROR. Indexed: no.

Target	Result	Time
linux-devel-x86_64	OK	284
source / vignettes	ERROR	301
linux-release-x86_64	OK	309
windows-devel-x86_64	OK	248
wasm-release	OK	227

Exports:bold.analyze.align bold.analyze.diversity bold.analyze.map bold.analyze.tree bold.apikey bold.data.summarize bold.export bold.fetch bold.fields.info bold.full.search bold.public.search

Dependencies:abind ape askpass base64enc BAT bit bit64 boot caret class classInt cli clock cluster clusterGeneration coda codetools combinat cpp11 crayon curl data.table DBI DEoptim diagram digest doParallel dplyr e1071 evaluate expm farver fastcluster fastmap fastmatch FNN foreach future future.apply generics geometry ggplot2 globals glue gower gtable hardhat highr hitandrun hms htmltools httr hypervolume igraph ipred isoband iterators jsonlite kernlab KernSmooth knitr ks labeling lattice lava lifecycle linprog listenv lpSolve lubridate magic magrittr maps MASS Matrix mclust mgcv mime mnormt ModelMetrics multicool mvtnorm nlme nls2 nnet numDeriv openssl optimParallel palmerpenguins parallelly pbapply pdist permute phangorn phytools pillar pkgconfig PlotTools plyr pracma prettyunits pROC prodlim progress progressr proto proxy purrr quadprog R6 raster rbibutils rcdd RColorBrewer Rcpp RcppArmadillo RcppProgress Rdpack recipes repr reshape2 rlang rnaturalearth rpart s2 S7 scales scatterplot3d sf shape skimr sp sparsevctrs SQUAREM stringi stringr survival sys terra tibble tidyr tidyselect timechange timeDate TreeTools tzdb units utf8 vctrs vegan viridisLite withr wk xfun yaml

Vignettes and/or manual for this package failed to build, some documents may be unavailable. Please inspect thebuild logs for more information.

A simple workflow using BOLDconnectR

Rendered fromboldconnectr_workflow.Rmdusingknitr::rmarkdown

Last update: 2026-07-23
Started: 2026-07-23

Help page	Topics
Transform and align the sequence data retrieved from BOLD	bold.analyze.align
Create a biodiversity profile of the retrieved data	bold.analyze.diversity
Visualize BIN occurrence data on maps	bold.analyze.map
Analyze and visualize the multiple sequence alignment	bold.analyze.tree
Set the BOLD private data API key	bold.apikey
Generate specific summaries from the downloaded BCDM data	bold.data.summarize
Export files generated by BOLDconnectR	bold.export
Retrieve data from the BOLD database	bold.fetch
Retrieve metadata of the BOLD data fields	bold.fields.info
Search user based (private) and publicly available data on the BOLD database	bold.full.search
Search publicly available data on the BOLD database	bold.public.search
Canadian spider data by Blagoev et al.(2015)	test.data
Example Barcode Core Data Model (BCDM) dataset	test.data2

Package: BOLDconnectR 1.0.1

BOLDconnectR: Retrieve, Transform and Analyze the Barcode of Life Data Systems Data

Citation

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)