rfPred: Assign rfPred functional prediction scores to a missense variants list

Based on external numerous data files where rfPred scores are pre-calculated on all genomic positions of the human exome, the package gives rfPred scores to missense variants identified by the chromosome, the position (hg19 version), the referent and alternative nucleotids and the uniprot identifier of the protein. Note that for using the package, the user has to be connected on the Internet or to download the TabixFile and index (approximately 3.3 Go).

AuthorFabienne Jabot-Hanin, Hugo Varet and Jean-Philippe Jais
Date of publicationNone
MaintainerHugo Varet <varethugo@gmail.com>
LicenseGPL (>=2 )
Version1.12.0
http://www.sbim.fr/rfPred

View on Bioconductor

Files

rfPred/DESCRIPTION
rfPred/NAMESPACE
rfPred/R
rfPred/R/NAMESPACE.r
rfPred/R/example_GRanges.r
rfPred/R/rfPred-package.r
rfPred/R/rfPred_scores-methods.r
rfPred/R/rfPred_scores_motor.r
rfPred/R/variant_list_Y.r
rfPred/build
rfPred/build/vignette.rds
rfPred/data
rfPred/data/example_GRanges.rda
rfPred/data/variant_list_Y.rda
rfPred/inst
rfPred/inst/CITATION
rfPred/inst/NEWS
rfPred/inst/doc
rfPred/inst/doc/vignette.R
rfPred/inst/doc/vignette.Rnw
rfPred/inst/doc/vignette.pdf
rfPred/inst/extdata
rfPred/inst/extdata/chrY_rfPred.txtz
rfPred/inst/extdata/chrY_rfPred.txtz.tbi
rfPred/inst/extdata/example.vcf
rfPred/man
rfPred/man/example_GRanges.Rd rfPred/man/rfPred-package.Rd rfPred/man/rfPred_scores-methods.Rd rfPred/man/rfPred_scores_motor.Rd rfPred/man/variant_list_Y.Rd
rfPred/src
rfPred/src/outstring.c
rfPred/vignettes
rfPred/vignettes/vignette.Rnw

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