recipe bioconductor-uncoverapplib

Interactive graphical application for clinical assessment of sequence coverage at the base-pair level

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-uncoverapplib/meta.yaml

a Shiny application containing a suite of graphical and statistical tools to support clinical assessment of low coverage regions.It displays three web pages each providing a different analysis module: Coverage analysis, calculate AF by allele frequency app and binomial distribution. uncoverAPP provides a statisticl summary of coverage given target file or genes name.

package bioconductor-uncoverapplib

Versions:

1.7.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

Depends:

• bioconductor-biocfilecache >=2.6.0,<2.7.0

• bioconductor-bsgenome.hsapiens.ucsc.hg19 >=1.4.0,<1.5.0

• bioconductor-bsgenome.hsapiens.ucsc.hg38 >=1.4.0,<1.5.0

• bioconductor-ensdb.hsapiens.v75 >=2.99.0,<2.100.0

• bioconductor-ensdb.hsapiens.v86 >=2.99.0,<2.100.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-gviz >=1.42.0,<1.43.0

• bioconductor-homo.sapiens >=1.3.0,<1.4.0

• bioconductor-org.hs.eg.db >=3.16.0,<3.17.0

• bioconductor-organismdbi >=1.40.0,<1.41.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-txdb.hsapiens.ucsc.hg19.knowngene >=3.2.0,<3.3.0

• bioconductor-txdb.hsapiens.ucsc.hg38.knowngene >=3.16.0,<3.17.0

• r-base >=4.2,<4.3.0a0

• r-condformat

• r-dt

• r-markdown

• r-openxlsx

• r-processx

• r-rappdirs

• r-rlist

• r-shiny

• r-shinybs

• r-shinycssloaders

• r-shinyjs

• r-shinywidgets

• r-stringr

Required By:

Installation

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

conda install bioconductor-uncoverapplib

and update with:

conda update bioconductor-uncoverapplib

or use the docker container:

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

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

Download stats

Link to this page

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