Package: airr 1.5.0

airr: AIRR Data Representation Reference Library

Schema definitions and read, write and validation tools for data formatted in accordance with the AIRR Data Representation schemas defined by the AIRR Community <http://docs.airr-community.org>.

Authors:Jason Vander Heiden [aut, cre], Susanna Marquez [aut], Scott Christley [aut], Katharina Imkeller [aut], Ulrik Stervbo [aut], AIRR Community [cph]

airr_1.5.0.tar.gz
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airr.pdf |airr.html✨
airr/json (API)
NEWS

# Install 'airr' in R:
install.packages('airr', repos = c('https://javh.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/airr-community/airr-standards/issues

On CRAN:

5.44 score 9 packages 137 scripts 1.5k downloads 20 exports 28 dependencies

Last updated 1 years agofrom:81a893aee9. Checks:8 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 19 2025
R-4.5-winOKFeb 19 2025
R-4.5-macOKFeb 19 2025
R-4.5-linuxOKFeb 19 2025
R-4.4-winOKFeb 19 2025
R-4.4-macOKFeb 19 2025
R-4.3-winOKFeb 19 2025
R-4.3-macOKFeb 19 2025

Exports:AIRRSchemaAlignmentSchemaDataFileSchemaGenotypeSetSchemaGermlineSetSchemaInfoSchemaload_schemaread_airrread_alignmentread_rearrangementread_tabularRearrangementSchemaRepertoireSchemavalidate_airrvalidate_rearrangementvalidate_tabularwrite_airrwrite_alignmentwrite_rearrangementwrite_tabular

Dependencies:bitbit64clicliprcpp11crayonfansigluehmsjsonlitelifecyclemagrittrpillarpkgconfigprettyunitsprogressR6readrrlangstringitibbletidyselecttzdbutf8vctrsvroomwithryaml

AIRR Data Representation Reference Library Usage

The AIRR Community

Rendered fromUsage-Vignette.Rmdusingknitr::rmarkdownon Feb 19 2025.

Last update: 2022-08-27
Started: 2018-05-03

Readme and manuals

Help Manual

Help pageTopics
Example AIRR dataExampleData
Load a schema definitionload_schema
Read an AIRR Data Model file in YAML or JSON formatread_airr
Read AIRR tabular dataread_alignment read_rearrangement read_tabular
S4 class defining an AIRR standard schema$,Schema-method AIRRSchema AlignmentSchema DataFileSchema GenotypeSetSchema GermlineSetSchema InfoSchema names,Schema-method RearrangementSchema RepertoireSchema Schema Schema-class Schema-method [,Schema,character-method
Validate an AIRR Data Model nested list representationvalidate_airr
Validate tabular AIRR datavalidate_rearrangement validate_tabular
Write AIRR Data Model records to YAML or JSON fileswrite_airr
Write an AIRR tabular datawrite_alignment write_rearrangement write_tabular