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Bioconductor - CircSeqAlignTk (development version)

CircSeqAlignTk

This is the development version of CircSeqAlignTk; for the stable release version, see CircSeqAlignTk.

End-to-End Analysis of Small RNA-Seq Data from Viroids

Bioconductor version: Development (3.22)

CircSeqAlignTk is a toolkit for the analysis of RNA-Seq data derived from circular genome sequences, with a primary focus on viroids, circular RNAs typically consisting of a few hundred nucleotides. The toolkit supports an end-to-end analysis pipeline, from alignment to visualization.

Author: Jianqiang Sun [cre, aut] ORCID: 0000-0002-3438-3199 , Xi Fu [ctb], Wei Cao [ctb]

Maintainer: Jianqiang Sun <sun at bitdessin.dev>

Citation (from within R, enter citation("CircSeqAlignTk")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("CircSeqAlignTk")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("CircSeqAlignTk")
Details biocViews Alignment, Sequencing, SmallRNA, Software Version 1.11.2 In Bioconductor since BioC 3.16 (R-4.2) (2.5 years) License MIT + file LICENSE Depends R (>= 4.2) Imports stats, tools, utils, R.utils, methods, S4Vectors, rlang, magrittr, dplyr, tidyr, ggplot2, BiocGenerics, Biostrings, IRanges, ShortRead, Rsamtools, Rbowtie2, Rhisat2, shiny, shinyFiles, shinyjs, plotly, parallel, htmltools System Requirements URL https://github.com/bitdessin/CircSeqAlignTk Bug Reports https://github.com/bitdessin/CircSeqAlignTk/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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