recipe bioconductor-cnvfilter

Identifies false positives of CNV calling tools by using SNV calls

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-cnvfilter/meta.yaml

CNVfilteR identifies those CNVs that can be discarded by using the single nucleotide variant (SNV) calls that are usually obtained in common NGS pipelines.

package bioconductor-cnvfilter

Versions:

1.12.0-0,  1.8.0-0,  1.6.0-0,  1.4.1-0,  1.4.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-copynumberplots >=1.14.0,<1.15.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-karyoploter >=1.24.0,<1.25.0

• bioconductor-regioner >=1.30.0,<1.31.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-variantannotation >=1.44.0,<1.45.0

• r-assertthat

• r-base >=4.2,<4.3.0a0

• r-pracma

Required By:

Installation

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

conda install bioconductor-cnvfilter

and update with:

conda update bioconductor-cnvfilter

or use the docker container:

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

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

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