DOI: 10.18129/B9.bioc.CircSeqAlignTk    

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

A toolkit for end-to-end analysis of RNA-seq data for circular genomes

Bioconductor version: Development (3.17)

CircSeqAlignTk is designed for end-to-end RNA-Seq data analysis of circular genome sequences, from alignment to visualization. It mainly targets viroids which are composed of 246-401 nt circular RNAs. In addition, CircSeqAlignTk implements a tidy interface to generate synthetic sequencing data that mimic real RNA-Seq data, allowing developers to evaluate the performance of alignment tools and workflows.

Author: Jianqiang Sun [aut, cre] , Xi Fu [aut], Wei Cao [aut]

Maintainer: Jianqiang Sun <sun at>

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biocViews Alignment, Sequencing, SmallRNA, Software
Version 1.1.0
In Bioconductor since BioC 3.16 (R-4.2) (< 6 months)
License MIT + file LICENSE
Depends R (>= 4.2)
Imports stats, tools, utils, methods, S4Vectors, rlang, magrittr, dplyr, tidyr, ggplot2, BiocGenerics, Biostrings, IRanges, ShortRead, Rsamtools, Rbowtie2, Rhisat2
Suggests knitr, rmarkdown, testthat, R.utils, BiocStyle
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