recipe bioconductor-seqsetvis

Set Based Visualizations for Next-Gen Sequencing Data

Homepage

https://bioconductor.org/packages/3.14/bioc/html/seqsetvis.html

License

MIT + file LICENSE

Recipe

/bioconductor-seqsetvis/meta.yaml

seqsetvis enables the visualization and analysis of sets of genomic sites in next gen sequencing data. Although seqsetvis was designed for the comparison of mulitple ChIP-seq samples, this package is domain-agnostic and allows the processing of multiple genomic coordinate files (bed-like files) and signal files (bigwig files pileups from bam file).

package bioconductor-seqsetvis

Versions

1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.2.0-0

Depends

• bioconductor-genomeinfodb >=1.30.0,<1.31.0

• bioconductor-genomicalignments >=1.30.0,<1.31.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-limma >=3.50.0,<3.51.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-rtracklayer >=1.54.0,<1.55.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• r-base >=4.1,<4.2.0a0

• r-data.table

• r-eulerr

• r-ggplot2

• r-ggplotify

• r-pbapply

• r-pbmcapply

• r-png

• r-rcolorbrewer

• r-upsetr

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-seqsetvis

and update with:

conda update bioconductor-seqsetvis

or use the docker container:

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

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

Download stats

Link to this page

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