TAPseq
This is the released version of TAPseq; for the devel version, see TAPseq.
All Bioconductor versions of TAPseq
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11
Targeted scRNA-seq primer design for TAP-seq
Bioconductor version: 3.23 · Package version: 1.24.0
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.
Author: Andreas R. Gschwind [aut, cre] 
, Lars Velten [aut] , Lars M. Steinmetz [aut]
Maintainer: Andreas R. Gschwind <andreas.gschwind at stanford.edu>
Citation
From within R, enter citation("TAPseq"):
Andreas R. Gschwind, Lars Velten, Lars M. Steinmetz. TAPseq: Targeted scRNA-seq primer design for TAP-seq. doi:10.18129/B9.bioc.TAPseq, R package version 1.24.0, https://bioconductor.org/packages/TAPseq.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TAPseq")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.24.0 |
| License | MIT + file LICENSE |
| URL | https://github.com/argschwind/TAPseq |
| System Requirements | Primer3 (>= 2.5.0), BLAST+ (>=2.6.0) |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.11 (R-4.0) (6 years) |
| Downloads rank | 1034 of 2,418 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | CRISPR, PooledScreens, Sequencing, SingleCell, Software, Technology |
| Package Short Url | https://bioconductor.org/packages/TAPseq/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("TAPseq")| Select target genes for TAP-seq | HTML | R Script |
| TAP-seq primer design workflow | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | TAPseq_1.24.0.tar.gz |
| Windows binary (x86_64) | TAPseq_1.24.0.zip |
| macOS binary (arm64) | TAPseq_1.24.0.tgz |
| macOS binary (x86_64) | TAPseq_1.24.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/TAPseq |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/TAPseq |
| Package Downloads Report | Download Stats |
Dependencies
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