recipe bioconductor-circseqaligntk

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

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/CircSeqAlignTk.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-circseqaligntk/meta.yaml

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.

package bioconductor-circseqaligntk

Versions:

1.0.0-0

Depends:

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rbowtie2 >=2.4.0,<2.5.0

• bioconductor-rhisat2 >=1.14.0,<1.15.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-shortread >=1.56.0,<1.57.0

• r-base >=4.2,<4.3.0a0

• r-dplyr

• r-ggplot2

• r-magrittr

• r-rlang

• r-tidyr

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-circseqaligntk

and update with:

conda update bioconductor-circseqaligntk

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-circseqaligntk:<tag>

(see bioconductor-circseqaligntk/tags for valid values for <tag>)

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