recipe bioconductor-lineagespot

Detection of SARS-CoV-2 lineages in wastewater samples using next-generation sequencing

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-lineagespot/meta.yaml

Lineagespot is a framework written in R, and aims to identify SARS-CoV-2 related mutations based on a single (or a list) of variant(s) file(s) (i.e., variant calling format). The method can facilitate the detection of SARS-CoV-2 lineages in wastewater samples using next generation sequencing, and attempts to infer the potential distribution of the SARS-CoV-2 lineages.

package bioconductor-lineagespot

Versions:

1.2.0-0

Depends:

• bioconductor-matrixgenerics >=1.10.0,<1.11.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-variantannotation >=1.44.0,<1.45.0

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-httr

• r-stringr

Required By:

Installation

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

conda install bioconductor-lineagespot

and update with:

conda update bioconductor-lineagespot

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

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