recipe bioconductor-biscuiteer

Convenience Functions for Biscuit

Homepage

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

License

GPL-3

Recipe

/bioconductor-biscuiteer/meta.yaml

A test harness for bsseq loading of Biscuit output, summarization of WGBS data over defined regions and in mappable samples, with or without imputation, dropping of mostly-NA rows, age estimates, etc.

package bioconductor-biscuiteer

Versions

1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-1

Depends

• bioconductor-biobase >=2.54.0,<2.55.0

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-biocparallel >=1.28.0,<1.29.0

• bioconductor-biscuiteerdata >=1.8.0,<1.9.0

• bioconductor-bsseq >=1.30.0,<1.31.0

• bioconductor-delayedmatrixstats >=1.16.0,<1.17.0

• bioconductor-dmrseq >=1.14.0,<1.15.0

• bioconductor-genomeinfodb >=1.30.0,<1.31.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-hdf5array >=1.22.0,<1.23.0

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

• bioconductor-impute >=1.68.0,<1.69.0

• bioconductor-mus.musculus >=1.3.0,<1.4.0

• bioconductor-qdnaseq >=1.30.0,<1.31.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-rtracklayer >=1.54.0,<1.55.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• bioconductor-variantannotation >=1.40.0,<1.41.0

• r-base >=4.1,<4.2.0a0

• r-data.table

• r-gtools

• r-matrix

• r-matrixstats

• r-qualv

• r-r.utils

• r-readr

Required By

Installation

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

conda install bioconductor-biscuiteer

and update with:

conda update bioconductor-biscuiteer

or use the docker container:

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

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

Download stats

Link to this page

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