recipe r-bisquerna

Provides tools to accurately estimate cell type abundances from heterogeneous bulk expression.

Homepage

https://www.biorxiv.org/content/10.1101/669911v1

License

GPL3 / GPL-3.0-only

Recipe

/r-bisquerna/meta.yaml

A reference-based method utilizes single-cell information to generate a signature matrix and transformation of bulk expression for accurate regression based estimates. A marker-based method utilizes known cell-specific marker genes to measure relative abundances across samples. For more details, see Jew and Alvarez et al (2019) <doi:10.1101/669911>.

package r-bisquerna

Versions

1.0.4-0,  1.0.3-1,  1.0.3-0,  1.0.2-0,  1.0.1-0,  1.0-1,  1.0-0

Depends

• bioconductor-biobase

• r-base >=4.0,<4.1.0a0

• r-limsolve

Required By

Installation

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

conda install r-bisquerna

and update with:

conda update r-bisquerna

or use the docker container:

docker pull quay.io/biocontainers/r-bisquerna:<tag>

(see r-bisquerna/tags for valid values for <tag>)

Link to this page

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