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Package: ensemblr 0.1.0

Ramiro Magno

ensemblr: R Client for the Ensembl REST API

R Client for the Ensembl REST API.

Authors:Ramiro Magno [aut, cre], Dany Mukesha [aut], Isabel Duarte [aut], Ana-Teresa Maia [aut], CINTESIS [fnd], Pattern Institute [cph, fnd]

ensemblr_0.1.0.tar.gz
ensemblr_0.1.0.zip(r-4.5)ensemblr_0.1.0.zip(r-4.4)ensemblr_0.1.0.zip(r-4.3)
ensemblr_0.1.0.tgz(r-4.4-any)ensemblr_0.1.0.tgz(r-4.3-any)
ensemblr_0.1.0.tar.gz(r-4.5-noble)ensemblr_0.1.0.tar.gz(r-4.4-noble)
ensemblr_0.1.0.tgz(r-4.4-emscripten)ensemblr_0.1.0.tgz(r-4.3-emscripten)
|ensemblr.html✨
ensemblr/json (API)

# Install 'ensemblr' in R:

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

Bug tracker:https://github.com/patterninstitute/ensemblr/issues

Datasets:

rest_api_endpoints - Ensembl REST API Endpoints.

On CRAN:

ensembl ensembl-rest

3.60 score 4 stars 7 scripts 27 exports 47 dependencies

Last updated 3 months agofrom:85d37bb732. Checks:ERROR: 1 WARNING: 6. Indexed: no.

Target	Result	Date
Doc / Vignettes	FAIL	Nov 18 2024
R-4.5-win	WARNING	Nov 18 2024
R-4.5-linux	WARNING	Nov 18 2024
R-4.4-win	WARNING	Nov 18 2024
R-4.4-mac	WARNING	Nov 18 2024
R-4.3-win	WARNING	Nov 18 2024
R-4.3-mac	WARNING	Nov 18 2024

Exports:%>%genomic_range get_analyses get_assemblies get_cytogenetic_bands get_data_versions get_divisions get_ensembl_genomes_version get_id get_individuals get_karyotypes get_ld_variants_by_pair get_ld_variants_by_pair_combn get_ld_variants_by_range get_ld_variants_by_window get_populations get_rest_version get_software_version get_species get_toplevel_sequence_info get_toplevel_sequences get_variant_consequences get_variation_sources get_versioning get_xrefs_by_ensembl_id get_xrefs_by_gene is_ensembl_reachable

Dependencies:askpass assertthat cachem cli concatenate cpp11 curl dplyr fansi fastmap generics glue httr httr2 jsonlite lifecycle magrittr memoise mime openssl pillar pingr pkgconfig plyr processx ps purrr R6 rappdirs Rcpp rlang rvest selectr stringi stringr sys tibble tibblify tidyjson tidyr tidyselect triebeard urltools utf8 vctrs withr xml2

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

Ensembl REST API Coverage

Rendered fromapi_coverage.Rmdusingknitr::rmarkdownon Nov 18 2024.

Last update: 2021-11-08
Started: 2019-07-24

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Create genomic range strings	genomic_range
Get analyses behind Ensembl databases	get_analyses
Get details about the genome assembly of a species	get_assemblies
Get cytogenetic bands by species	get_cytogenetic_bands
Retrieve the data release version(s) available on the Ensembl REST server.	get_data_versions
Retrieve Ensembl divisions	get_divisions
Get Ensembl Genomes version	get_ensembl_genomes_version
Get details about an Ensembl identifier	get_id
Get individuals for a population	get_individuals
Get the karyotype of a species	get_karyotypes
Get linkage disequilibrium data for variants	get_ld_variants_by_by_window get_ld_variants_by_pair get_ld_variants_by_pair_combn get_ld_variants_by_range get_ld_variants_by_window
Get populations for a species	get_populations
Retrieve the current version of the Ensembl REST API	get_rest_version
Retrieve the Perl API version	get_software_version
Get Ensembl species	get_species
Get toplevel sequences details	get_toplevel_sequence_info
Get toplevel sequences by species	get_toplevel_sequences
Retrieve variant consequences	get_variant_consequences
Retrieve variant sources	get_variation_sources
Retrieve Ensembl REST versions	get_versioning
Get cross-references by Ensembl ID	get_xrefs_by_ensembl_id
Get cross references by gene symbol or name	get_xrefs_by_gene
Is the Ensembl REST API server reachable?	is_ensembl_reachable
Ensembl REST API Endpoints.	rest_api_endpoints