recipe bioconductor-cellscore

Tool for Evaluation of Cell Identity from Transcription Profiles

Homepage

https://bioconductor.org/packages/3.14/bioc/html/CellScore.html

License

GPL-3

Recipe

/bioconductor-cellscore/meta.yaml

The CellScore package contains functions to evaluate the cell identity of a test sample, given a cell transition defined with a starting (donor) cell type and a desired target cell type. The evaluation is based upon a scoring system, which uses a set of standard samples of known cell types, as the reference set. The functions have been carried out on a large set of microarray data from one platform (Affymetrix Human Genome U133 Plus 2.0). In principle, the method could be applied to any expression dataset, provided that there are a sufficient number of standard samples and that the data are normalized.

package bioconductor-cellscore

Versions

1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.2.0-0

Depends

• bioconductor-biobase >=2.54.0,<2.55.0

• r-base >=4.1,<4.2.0a0

• r-gplots >=3.0.1

• r-lsa >=0.73.1

• r-rcolorbrewer >=1.1-2

• r-squash >=1.0.8

Required By

Installation

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

conda install bioconductor-cellscore

and update with:

conda update bioconductor-cellscore

or use the docker container:

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

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

Download stats

Link to this page

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