Package: VariantFiltering
Type: Package
Title: Filtering of coding and non-coding genetic variants
Description: Filter genetic variants using different criteria such as
        inheritance model, amino acid change consequence, minor allele
        frequencies across human populations, splice site strength,
        conservation, etc.
Version: 1.49.0
Authors@R: c(person("Robert", "Castelo", role=c("aut", "cre"), email="robert.castelo@upf.edu"),
             person("Dei", "Martinez Elurbe", role="ctb"),
             person("Pau", "Puigdevall", role="ctb"),
             person("Joan", "Fernandez", role="ctb"))
License: Artistic-2.0
Depends: R (>= 3.5.0), methods, BiocGenerics (>= 0.25.1),
        VariantAnnotation (>= 1.13.29)
Imports: utils, stats, Biobase, S4Vectors (>= 0.9.25), IRanges (>=
        2.3.23), RBGL, graph, AnnotationDbi, BiocParallel, Seqinfo (>=
        0.99.2), GenomeInfoDb (>= 1.45.7), Biostrings (>= 2.77.2),
        GenomicRanges (>= 1.61.1), SummarizedExperiment (>= 1.39.1),
        GenomicFeatures (>= 1.61.4), Rsamtools (>= 2.25.1), BSgenome
        (>= 1.77.1), GenomicScores (>= 2.21.4), Gviz (>= 1.53.1),
        shiny, shinythemes, shinyjs, DT, shinyTree
Suggests: RUnit, BiocStyle, org.Hs.eg.db,
        BSgenome.Hsapiens.1000genomes.hs37d5,
        TxDb.Hsapiens.UCSC.hg19.knownGene,
        SNPlocs.Hsapiens.dbSNP144.GRCh37,
        MafDb.1Kgenomes.phase1.hs37d5, phastCons100way.UCSC.hg19,
        PolyPhen.Hsapiens.dbSNP131, SIFT.Hsapiens.dbSNP137
LinkingTo: S4Vectors, IRanges, XVector, Biostrings
URL: https://github.com/rcastelo/VariantFiltering
BugReports: https://github.com/rcastelo/VariantFiltering/issues
biocViews: Genetics, Homo_sapiens, Annotation, SNP, Sequencing,
        HighThroughputSequencing
Config/pak/sysreqs: cmake make libbz2-dev libicu-dev libjpeg-dev
        liblzma-dev libpng-dev libuv1-dev libxml2-dev libssl-dev
        xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:39:01 UTC
RemoteUrl: https://github.com/bioc/VariantFiltering
RemoteRef: HEAD
RemoteSha: 7e523589a8af3db1be0ef7de554435029d8893b0
NeedsCompilation: yes
Packaged: 2026-06-05 07:08:43 UTC; root
Author: Robert Castelo [aut, cre],
  Dei Martinez Elurbe [ctb],
  Pau Puigdevall [ctb],
  Joan Fernandez [ctb]
Maintainer: Robert Castelo <robert.castelo@upf.edu>