Package: kibior 0.1.1

Régis Ongaro-Carcy

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>.

Authors:Régis Ongaro-Carcy [aut, cre, ctb], Arnaud Droit [fnd]

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kibior.pdf |kibior.html✨
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Peer review:

Bug tracker:https://github.com/regisoc/kibior/issues

On CRAN:

dataimportdatarepresentationthirdpartyclientdata-sciencedatabasedatasetselasticsearchelasticsearch-clientpush-pullsearchsearch-engine

1 exports 3 stars 0.93 score 95 dependencies 8 scripts 226 downloads

Last updated 3 years agofrom:4c09013b81. Checks:OK: 1 NOTE: 6. Indexed: yes.

Exports:Kibior

Dependencies:abindaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopscellrangerclicliprcodetoolscpp11crayoncrulcurldata.tableDelayedArraydplyrelasticfansiforcatsforeignformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicRangesgluehavenhmshttpcodehttrIRangesjsonlitelambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmimeopensslpillarpkgconfigprettyunitsprogresspurrrR.methodsS3R.ooR.utilsR6RcppRCurlreadrreadxlrematchrestfulrRhtslibriorjsonrlangRsamtoolsrtracklayerS4ArraysS4VectorssnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttriebeardtzdbUCSC.utilsurltoolsutf8vctrsvroomwithrwritexlXMLXVectoryamlzlibbioc