primirTSS
This is the released version of primirTSS; for the devel version, see primirTSS.
All Bioconductor versions of primirTSS
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, 3.10, 3.9, 3.8
Prediction of pri-miRNA Transcription Start Site
Bioconductor version: 3.23 · Package version: 1.30.0
A fast, convenient tool to identify the TSSs of miRNAs by integrating the data of H3K4me3 and Pol II as well as combining the conservation level and sequence feature, provided within both command-line and graphical interfaces, which achieves a better performance than the previous non-cell-specific methods on miRNA TSSs.
Author: Pumin Li [aut, cre], Qi Xu [aut], Jie Li [aut], Jin Wang [aut]
Maintainer: Pumin Li <ipumin at 163.com>
Citation
From within R, enter citation("primirTSS"):
Pumin Li, Qi Xu, Jie Li, Jin Wang. primirTSS: Prediction of pri-miRNA Transcription Start Site. doi:10.18129/B9.bioc.primirTSS, R package version 1.30.0, https://bioconductor.org/packages/primirTSS.
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("primirTSS")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.30.0 |
| License | GPL-2 |
| URL | https://github.com/ipumin/primirTSS |
| Bug Reports | http://github.com/ipumin/primirTSS/issues |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.8 (R-3.5) (7 years) |
| Downloads rank | 897 of 2,418 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | GeneRegulation, Genetics, ImmunoOncology, Preprocessing, RNASeq, Sequencing, Software, Transcription |
| Package Short Url | https://bioconductor.org/packages/primirTSS/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("primirTSS")| primirTSS | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | primirTSS_1.30.0.tar.gz |
| Windows binary (x86_64) | primirTSS_1.30.0.zip |
| macOS binary (arm64) | primirTSS_1.30.0.tgz |
| macOS binary (x86_64) | primirTSS_1.30.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/primirTSS |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/primirTSS |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 3.5.0)
Imports: GenomicRanges (>= 1.32.2), S4Vectors (>= 0.18.2), rtracklayer (>= 1.40.3), dplyr (>= 0.7.6), stringr (>= 1.3.1), tidyr (>= 0.8.1), Biostrings (>= 2.48.0), purrr (>= 0.2.5), BSgenome.Hsapiens.UCSC.hg38 (>= 1.4.1), phastCons100way.UCSC.hg38 (>= 3.7.1), GenomicScores (>= 1.4.1), shiny (>= 1.0.5), Gviz (>= 1.24.0), BiocGenerics (>= 0.26.0), IRanges (>= 2.14.10), TFBSTools (>= 1.18.0), JASPAR2018 (>= 1.1.1), tibble (>= 1.4.2), R.utils (>= 2.6.0), stats, utils