recipe bioconductor-harman

The removal of batch effects from datasets using a PCA and constrained optimisation based technique

Homepage:

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

License:

GPL-3 + file LICENCE

Recipe:

/bioconductor-harman/meta.yaml

Links:

biotools: harman

Harman is a PCA and constrained optimisation based technique that maximises the removal of batch effects from datasets, with the constraint that the probability of overcorrection (i.e. removing genuine biological signal along with batch noise) is kept to a fraction which is set by the end-user.

package bioconductor-harman

Versions:

1.26.0-0,  1.22.0-2,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0, 

1.26.0-0,  1.22.0-2,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.12.0-0,  1.10.0-0,  1.8.0-0,  1.6.0-0

Depends:

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-ckmeans.1d.dp

• r-matrixstats

• r-rcpp >=0.11.2

Required By:

• bioconductor-debrowser

Installation

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

conda install bioconductor-harman

and update with:

conda update bioconductor-harman

or use the docker container:

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

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

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