Package: biomartr
Title: Genomic Data Retrieval
Version: 1.0.11
Authors@R: c(person("Hajk-Georg", "Drost",
                role = c("aut", "cre"),
                email = "hajk-georg.drost@tuebingen.mpg.de",
                comment = c(ORCID = "http://orcid.org/0000-0002-1567-306X")),
                person("Haakon", "Tjeldnes", 
                email = "hauken_heyken@hotmail.com", 
                role = c("aut", "ctb"))
                )
Description: Perform large scale genomic data retrieval and functional
        annotation retrieval. This package aims to provide users with a
        standardized way to automate genome, proteome, 'RNA', coding
        sequence ('CDS'), 'GFF', and metagenome retrieval from 'NCBI
        RefSeq', 'NCBI Genbank', 'ENSEMBL', and 'UniProt' databases.
        Furthermore, an interface to the 'BioMart' database (Smedley et
        al. (2009) <doi:10.1186/1471-2164-10-22>) allows users to
        retrieve functional annotation for genomic loci. In addition,
        users can download entire databases such as 'NCBI RefSeq'
        (Pruitt et al. (2007) <doi:10.1093/nar/gkl842>), 'NCBI nr',
        'NCBI nt', 'NCBI Genbank' (Benson et al. (2013)
        <doi:10.1093/nar/gks1195>), etc. with only one command.
VignetteBuilder: knitr
Depends: R (>= 3.1.1)
Imports: biomaRt, Biostrings, curl, tibble, jsonlite, dplyr (>= 0.3.0),
        readr (>= 1.4.0), downloader (>= 0.3), RCurl (>= 1.95-4.5), XML
        (>= 3.98-1.1), httr (>= 0.6.1), stringr (>= 0.6.2), data.table
        (>= 1.9.4), purrr, R.utils, withr, fs
Suggests: knitr (>= 1.6), rmarkdown (>= 0.3.3), devtools (>= 1.6.1),
        testthat, seqinr, magrittr
License: GPL-2
URL: https://docs.ropensci.org/biomartr/,
        https://github.com/ropensci/biomartr
BugReports: https://github.com/ropensci/biomartr/issues
RoxygenNote: 7.3.3
Encoding: UTF-8
X-schema.org-keywords: BioMart, genomic-data-retrieval,
        annotation-retrieval, database-retrieval, NCBI, ENSEMBL,
        biological-data-retrieval
X-schema.org-applicationCategory: Data Access
X-schema.org-isPartof: "ropensci.org"
Config/pak/sysreqs: cmake make libicu-dev libpng-dev libuv1-dev
        libxml2-dev libssl-dev libx11-dev zlib1g-dev
Repository: https://ropensci.r-universe.dev
Date/Publication: 2025-12-02 15:45:39 UTC
RemoteUrl: https://github.com/ropensci/biomartr
RemoteRef: master
RemoteSha: 5affece1736b5d3198c788456320a262c63ceb8e
NeedsCompilation: no
Packaged: 2026-07-01 08:20:23 UTC; root
Author: Hajk-Georg Drost [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-1567-306X>),
  Haakon Tjeldnes [aut, ctb]
Maintainer: Hajk-Georg Drost <hajk-georg.drost@tuebingen.mpg.de>