Package: FilterFFPE
Type: Package
Title: FFPE Artificial Chimeric Read Filter for NGS data
Version: 1.23.0
Authors@R: person("Lanying", "Wei", email="lanying.wei@uni-muenster.de",
    role = c("aut", "cre"), comment = c(ORCID = "0000-0002-4281-8017"))
Description: This package finds and filters artificial chimeric reads
        specifically generated in next-generation sequencing (NGS)
        process of formalin-fixed paraffin-embedded (FFPE) tissues.
        These artificial chimeric reads can lead to a large number of
        false positive structural variation (SV) calls. The required
        input is an indexed BAM file of a FFPE sample.
License: LGPL-3
Encoding: UTF-8
Imports: foreach, doParallel, GenomicRanges, IRanges, Rsamtools,
        parallel, S4Vectors
Suggests: BiocStyle
biocViews: StructuralVariation, Sequencing, Alignment, QualityControl,
        Preprocessing
Config/pak/sysreqs: libbz2-dev liblzma-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:53:40 UTC
RemoteUrl: https://github.com/bioc/FilterFFPE
RemoteRef: HEAD
RemoteSha: b5ae7a79d9200b99e31febb0792b162c2fa8a0cd
NeedsCompilation: no
Packaged: 2026-07-04 07:46:21 UTC; root
Author: Lanying Wei [aut, cre] (ORCID: <https://orcid.org/0000-0002-4281-8017>)
Maintainer: Lanying Wei <lanying.wei@uni-muenster.de>