kibior: A Simple Data Management and Sharing Tool
An interface to store, retrieve, search, join and share datasets, based on Elasticsearch (ES) API. As a decentralized, FAIR and collaborative search engine and database effort, it proposes a simple push/pull/search mechanism only based on ES, a tool which can be deployed on nearly any hardware. It is a high-level R-ES binding to ease data usage using 'elastic' package (S. Chamberlain (2020)) <https://docs.ropensci.org/elastic/>, extends joins from 'dplyr' package (H. Wickham et al. (2020)) <https://dplyr.tidyverse.org/> and integrates specific biological format importation with Bioconductor packages such as 'rtracklayer' (M. Lawrence and al. (2009) <doi:10.1093/bioinformatics/btp328>) <http://bioconductor.org/packages/rtracklayer>, 'Biostrings' (H. Pagès and al. (2020) <doi:10.18129/B9.bioc.Biostrings>) <http://bioconductor.org/packages/Biostrings>, and 'Rsamtools' (M. Morgan and al. (2020) <doi:10.18129/B9.bioc.Rsamtools>) <http://bioconductor.org/packages/Rsamtools>, but also a long list of more common ones with 'rio' (C-h. Chan and al. (2018)) <https://cran.r-project.org/package=rio>.
| Version: | 0.1.1 |
| Depends: | R (≥ 4.0) |
| Imports: | R6 (≥ 2.5.0), data.table (≥ 1.13.2), stringr (≥ 1.4.0), purrr (≥ 0.3.4), jsonlite (≥ 1.7.1), rio (≥ 0.5.16), tibble (≥ 3.0.4), dplyr (≥ 1.0.2), magrittr (≥ 1.5), tidyr (≥ 1.1.2), elastic (≥ 1.1.0), Biostrings, Rsamtools, rtracklayer |
| Suggests: | ggplot2 (≥ 3.3.2), readr (≥ 1.4.0), xml2 (≥ 1.3.2), yaml (≥ 2.2.1), testthat (≥ 3.0.0), rmarkdown (≥ 2.5), knitr (≥ 1.30) |
| Published: | 2021-01-28 |
| DOI: | 10.32614/CRAN.package.kibior |
| Author: | Régis Ongaro-Carcy
 [aut, cre,
ctb],
Arnaud Droit [fnd] |
| Maintainer: | Régis Ongaro-Carcy <regis.ongaro-carcy2 at crchudequebec.ulaval.ca> |
| BugReports: | https://github.com/regisoc/kibior/issues |
| License: | GPL-2 |
| URL: | https://github.com/regisoc/kibior |
| NeedsCompilation: | no |
| Citation: | kibior citation info |
| Materials: | README |
| CRAN checks: | kibior results |
Documentation:
| Reference manual: | kibior.pdf |
| Vignettes: |
kibior_biological_examples kibior_introduction |
Downloads:
| Package source: | kibior_0.1.1.tar.gz |
| Windows binaries: | r-devel: kibior_0.1.1.zip, r-release: kibior_0.1.1.zip, r-oldrel: kibior_0.1.1.zip |
| macOS binaries: | r-release (arm64): kibior_0.1.1.tgz, r-oldrel (arm64): kibior_0.1.1.tgz, r-release (x86_64): kibior_0.1.1.tgz, r-oldrel (x86_64): kibior_0.1.1.tgz |
| Old sources: | kibior archive |
Linking:
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