Package: SimFFPE
Type: Package
Title: NGS Read Simulator for FFPE Tissue
Version: 1.4.0
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: RELEASE_3_13
git_last_commit: 13e0b8e
git_last_commit_date: 2021-05-19
Date/Publication: 2021-05-19
NeedsCompilation: no
Packaged: 2021-05-20 02:24:07 UTC; biocbuild
Author: Lanying Wei [aut, cre] (<https://orcid.org/0000-0002-4281-8017>)
Maintainer: Lanying Wei <lanying.wei@uni-muenster.de>
Built: R 4.1.0; ; 2021-05-20 10:05:53 UTC; windows
