Package: myvariant 1.35.0

Adam Mark, Chunlei Wu

myvariant: Accesses MyVariant.info variant query and annotation services

MyVariant.info is a comprehensive aggregation of variant annotation resources. myvariant is a wrapper for querying MyVariant.info services

Authors:Adam Mark

myvariant_1.35.0.tar.gz
myvariant_1.35.0.zip(r-4.5)myvariant_1.35.0.zip(r-4.4)myvariant_1.35.0.zip(r-4.3)
myvariant_1.35.0.tgz(r-4.4-any)myvariant_1.35.0.tgz(r-4.3-any)
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myvariant.pdf |myvariant.html✨
myvariant/json (API)

# Install 'myvariant' in R:

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

On BioConductor:myvariant-1.35.0(bioc 3.20)myvariant-1.34.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

8 exports 0.91 score 122 dependencies 3 mentions

Last updated 2 months agofrom:ff9a783f5d

Exports:formatHgvs formatSingleHgvs getVariant getVariants metadata MyVariant queryVariant queryVariants

Dependencies:abind AnnotationDbi askpass backports base64enc BH Biobase BiocGenerics BiocIO BiocParallel Biostrings bit bit64 bitops blob BSgenome bslib cachem checkmate cli cluster codetools colorspace cpp11 crayon curl data.table DBI DelayedArray digest evaluate fansi farver fastmap fontawesome foreign formatR Formula fs futile.logger futile.options GenomeInfoDb GenomeInfoDbData GenomicAlignments GenomicFeatures GenomicRanges ggplot2 glue gridExtra gtable highr Hmisc htmlTable htmltools htmlwidgets httr IRanges isoband jquerylib jsonlite KEGGREST knitr labeling lambda.r lattice lifecycle magrittr MASS Matrix MatrixGenerics matrixStats memoise mgcv mime munsell nlme nnet openssl pillar pkgconfig plogr plyr png R6 rappdirs RColorBrewer Rcpp RCurl restfulr Rhtslib rjson rlang rmarkdown rpart Rsamtools RSQLite rstudioapi rtracklayer S4Arrays S4Vectors sass scales snow SparseArray stringi stringr SummarizedExperiment sys tibble tinytex UCSC.utils utf8 VariantAnnotation vctrs viridis viridisLite withr xfun XML XVector yaml zlibbioc

Using MyVariant.R

Rendered frommyvariant.Rnwusingutils::Sweaveon Jun 24 2024.

Last update: 2015-08-13
Started: 2015-08-13

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Get all HGVS IDs from Vcf object.	formatHgvs
Get Hgvs HGVS ID from chromosome, position, reference and alternate alleles.	formatSingleHgvs
Return the variant object for the given HGVS id.	getVariant getVariant,missing-method getVariant,MyVariant-method
Return the list of variant objects for the given list of HGVS ids.	getVariants getVariants,missing-method getVariants,MyVariant-method
metadata	metadata metadata,MyVariant-method
Access MyVariant.info variant annotation services	myvariant
MyVariant	MyVariant
Class '"MyVariant"'	MyVariant-class
Return the query result.	queryVariant queryVariant,missing-method queryVariant,MyVariant-method
Return the batch query result.	queryVariants queryVariants,missing-method queryVariants,MyVariant-method

Usage by other packages (reverse dependencies)