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: 1.43.0
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, Biostrings (>= 2.33.11),
         GenomeInfoDb (>= 1.3.6), GenomicRanges (>= 1.19.13), SummarizedExperiment,
         GenomicFeatures, Rsamtools (>= 1.17.8), BSgenome, GenomicScores (>= 1.0.0),
         Gviz, 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