Package: TAPseq
Type: Package
Title: Targeted scRNA-seq primer design for TAP-seq
Version: 1.23.0
Authors@R: c(
  person(c("Andreas", "R."), "Gschwind", email = "andreas.gschwind@stanford.edu",
         role = c("aut", "cre"), comment = c(ORCID = "0000-0002-0769-6907")),
  person("Lars", "Velten", email = "lars.velten@crg.eu", role = "aut",
         comment = c(ORCID = "0000-0002-1233-5874")),
  person(c("Lars", "M."), "Steinmetz", role = "aut"))
Description: Design primers for targeted single-cell RNA-seq used by
        TAP-seq. Create sequence templates for target gene panels and
        design gene-specific primers using Primer3. Potential
        off-targets can be estimated with BLAST. Requires working
        installations of Primer3 and BLASTn.
URL: https://github.com/argschwind/TAPseq
BugRepots: https://github.com/argschwind/TAPseq/issues
biocViews: SingleCell, Sequencing, Technology, CRISPR, PooledScreens
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.2.3
VignetteBuilder: knitr
Depends: R (>= 4.0.0)
Imports: methods, GenomicAlignments, GenomicRanges, IRanges,
        BiocGenerics, S4Vectors (>= 0.20.1), GenomeInfoDb, BSgenome,
        GenomicFeatures, Biostrings, dplyr, tidyr, BiocParallel
Suggests: testthat, BSgenome.Hsapiens.UCSC.hg38, knitr, rmarkdown,
        ggplot2, Seurat, glmnet, cowplot, Matrix, rtracklayer,
        BiocStyle
SystemRequirements: Primer3 (>= 2.5.0), BLAST+ (>=2.6.0)
Config/pak/sysreqs: make libbz2-dev libicu-dev liblzma-dev libpng-dev
        libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 14:57:19 UTC
RemoteUrl: https://github.com/bioc/TAPseq
RemoteRef: HEAD
RemoteSha: 8fcac6c182ad7a6eeb841492721a1450c3d7c809
NeedsCompilation: no
Packaged: 2025-10-30 13:45:01 UTC; root
Author: Andreas R. Gschwind [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-0769-6907>),
  Lars Velten [aut] (ORCID: <https://orcid.org/0000-0002-1233-5874>),
  Lars M. Steinmetz [aut]
Maintainer: Andreas R. Gschwind <andreas.gschwind@stanford.edu>
Built: R 4.6.0; ; 2025-10-30 13:50:22 UTC; windows
