Package: SimFFPE
Type: Package
Title: NGS Read Simulator for FFPE Tissue
Version: 1.21.0
Authors@R: person("Lanying", "Wei", email="lanying.wei@uni-muenster.de",
    role = c("aut", "cre"), comment = c(ORCID = "0000-0002-4281-8017"))
Description: The NGS (Next-Generation Sequencing) reads from FFPE 
    (Formalin-Fixed Paraffin-Embedded) samples contain numerous artifact 
    chimeric reads (ACRS), which can lead to false positive structural variant 
    calls. These ACRs are derived from the combination of two single-stranded 
    DNA (ss-DNA) fragments with short reverse complementary regions (SRCRs). 
    This package simulates these artifact chimeric reads as well as normal reads 
    for FFPE samples on the whole genome / several chromosomes / large regions.
License: LGPL-3
Encoding: UTF-8
Depends: Biostrings
Imports: dplyr, foreach, doParallel, truncnorm, GenomicRanges, IRanges,
        Rsamtools, parallel, graphics, stats, utils, methods
Suggests: BiocStyle
biocViews: Sequencing, Alignment, MultipleComparison, SequenceMatching,
        DataImport
git_url: https://git.bioconductor.org/packages/SimFFPE
git_branch: devel
git_last_commit: 1a970ef
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
NeedsCompilation: no
Packaged: 2025-06-05 02:09:31 UTC; biocbuild
Author: Lanying Wei [aut, cre] (ORCID: <https://orcid.org/0000-0002-4281-8017>)
Maintainer: Lanying Wei <lanying.wei@uni-muenster.de>
Built: R 4.5.0; ; 2025-06-05 14:03:09 UTC; windows
