recipe bioconductor-newwave

Negative binomial model for scRNA-seq

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-newwave/meta.yaml

A model designed for dimensionality reduction and batch effect removal for scRNA-seq data. It is designed to be massively parallelizable using shared objects that prevent memory duplication, and it can be used with different mini-batch approaches in order to reduce time consumption. It assumes a negative binomial distribution for the data with a dispersion parameter that can be both commonwise across gene both genewise.

package bioconductor-newwave

Versions:

1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.2-0,  0.99.10-1

Depends:

• bioconductor-biocsingular >=1.14.0,<1.15.0

• bioconductor-delayedarray >=0.24.0,<0.25.0

• bioconductor-sharedobject >=1.12.0,<1.13.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-irlba

• r-matrix

Required By:

Installation

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

conda install bioconductor-newwave

and update with:

conda update bioconductor-newwave

or use the docker container:

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

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

Download stats

Link to this page

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