recipe bioconductor-cfdnapro

cfDNAPro extracts and Visualises biological features from whole genome sequencing data of cell-free DNA

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-cfdnapro/meta.yaml

cfDNA fragments carry important features for building cancer sample classification ML models, such as fragment size, and fragment end motif etc. Analyzing and visualizing fragment size metrics, as well as other biological features in a curated, standardized, scalable, well-documented, and reproducible way might be time intensive. This package intends to resolve these problems and simplify the process. It offers two sets of functions for cfDNA feature characterization and visualization.

package bioconductor-cfdnapro

Versions:

1.4.0-0,  1.0.0-3,  1.0.0-2,  1.0.0-1

Depends:

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• 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-plyranges >=1.18.0,<1.19.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• r-base >=4.2,<4.3.0a0

• r-dplyr >=0.8.3

• r-ggplot2 >=3.2.1

• r-magrittr >=1.5.0

• r-quantmod >=0.4

• r-rlang >=0.4.0

• r-stringr >=1.4.0

• r-tibble

Required By:

Installation

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

conda install bioconductor-cfdnapro

and update with:

conda update bioconductor-cfdnapro

or use the docker container:

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

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

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Link to this page

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