recipe bioconductor-madseq

Mosaic Aneuploidy Detection and Quantification using Massive Parallel Sequencing Data

Homepage:

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

License:

GPL(>=2)

Recipe:

/bioconductor-madseq/meta.yaml

Links:

biotools: madseq, doi: 10.1101/142299

The MADSEQ package provides a group of hierarchical Bayeisan models for the detection of mosaic aneuploidy, the inference of the type of aneuploidy and also for the quantification of the fraction of aneuploid cells in the sample.

package bioconductor-madseq

Versions:

1.24.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.6.1-0, 

1.24.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.6.1-0,  1.4.1-0

Depends:

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-bsgenome >=1.66.0,<1.67.0

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

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicalignments >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-preprocesscore >=1.60.0,<1.61.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-variantannotation >=1.44.0,<1.45.0

• bioconductor-zlibbioc >=1.44.0,<1.45.0

• r-base >=4.2,<4.3.0a0

• r-coda

• r-rjags >=4.6

• r-vcfr

• r-vgam

Required By:

Installation

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

conda install bioconductor-madseq

and update with:

conda update bioconductor-madseq

or use the docker container:

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

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

Download stats

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