DESCRIPTION

Package: FISHprobe
Title: FISH Probe Design Tools
Version: 0.4.1
Authors@R: person("Steve X", "Niu", email = "xin2001@med.cornell.edu", role = c("aut", "cre"))
Description: Probe sequence design tool for RNA Fluorescence In Situ Hybridization (RNA-FISH) experiments, such as high-throughput MERFIS, SeqFISH+ STARmap etc.
Depends: R (>= 3.5.1)
biocViews:
Imports:
    BiocManager,
    Ringo,
    biomaRt,
    IRanges,
    BiocGenerics,
    stringr, seqinr,
    D3GB,
    cowplot,
    TmCalculator,
    stringi,
    Hmisc,
    pbapply,
    pbmcapply,
    future,
    future.apply,
    reshape2,
    ggplot2,
    LncFinder,
    intervals,
    Biostrings,
    rBLAST,
    BSgenome.Hsapiens.UCSC.hg38.masked,
    BSgenome.Mmusculus.UCSC.mm10.masked,
    GenomeInfoDb,
    GenomeInfoDbData
Remotes: stevexniu/rBLAST, stevexniu/BSgenome.Mmusculus.UCSC.mm10.masked
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Collate:
    'utils.R'
    'blast.R'
    'data.R'
    'expression.R'
    'object.R'
    'plot.R'
    'probes.R'
    'readout.R'
RoxygenNote: 7.0.2
Suggests:
    knitr
VignetteBuilder: knitr