Package: appreci8R
Type: Package
Title: appreci8R: an R/Bioconductor package for filtering SNVs and
        short indels with high sensitivity and high PPV
Version: 1.28.0
Author: Sarah Sandmann
Maintainer: Sarah Sandmann <sarah.sandmann@uni-muenster.de>
Description: The appreci8R is an R version of our appreci8-algorithm -
        A Pipeline for PREcise variant Calling Integrating 8 tools.
        Variant calling results of our standard appreci8-tools (GATK,
        Platypus, VarScan, FreeBayes, LoFreq, SNVer, samtools and
        VarDict), as well as up to 5 additional tools is combined,
        evaluated and filtered.
License: LGPL-3
Encoding: UTF-8
Imports: shiny, shinyjs, DT, VariantAnnotation, BSgenome,
        BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene,
        Homo.sapiens, SNPlocs.Hsapiens.dbSNP144.GRCh37,
        XtraSNPlocs.Hsapiens.dbSNP144.GRCh37, Biostrings,
        MafDb.1Kgenomes.phase3.hs37d5, MafDb.ExAC.r1.0.hs37d5,
        MafDb.gnomADex.r2.1.hs37d5, COSMIC.67, rentrez,
        PolyPhen.Hsapiens.dbSNP131, SIFT.Hsapiens.dbSNP137, seqinr,
        openxlsx, Rsamtools, stringr, stats, GenomicRanges, S4Vectors,
        GenomicFeatures, IRanges, GenomicScores, SummarizedExperiment
Suggests: GO.db, org.Hs.eg.db, utils
biocViews: VariantDetection, GeneticVariability, SNP,
        VariantAnnotation, Sequencing,
RoxygenNote: 6.0.1
Config/pak/sysreqs: make libbz2-dev libicu-dev liblzma-dev libpng-dev
        libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:46:18 UTC
RemoteUrl: https://github.com/bioc/appreci8R
RemoteRef: RELEASE_3_22
RemoteSha: 43ec6e7f37c9fd1ca7b7ea37043e621cb3bd458c
NeedsCompilation: no
Packaged: 2025-11-11 22:51:11 UTC; root
Built: R 4.5.2; ; 2025-11-12 03:27:28 UTC; windows
