recipe bioconductor-peco

A Supervised Approach for **P**r**e**dicting **c**ell Cycle Pr**o**gression using scRNA-seq data

Homepage

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

License

GPL (>= 3)

Recipe

/bioconductor-peco/meta.yaml

Our approach provides a way to assign continuous cell cycle phase using scRNA-seq data, and consequently, allows to identify cyclic trend of gene expression levels along the cell cycle. This package provides method and training data, which includes scRNA-seq data collected from 6 individual cell lines of induced pluripotent stem cells (iPSCs), and also continuous cell cycle phase derived from FUCCI fluorescence imaging data.

package bioconductor-peco

Versions

1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

Depends

• bioconductor-scater >=1.22.0,<1.23.0

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• r-assertthat

• r-base >=4.1,<4.2.0a0

• r-circular

• r-conicfit

• r-doparallel

• r-foreach

• r-genlasso >=1.4

Required By

Installation

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

conda install bioconductor-peco

and update with:

conda update bioconductor-peco

or use the docker container:

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

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

Download stats

Link to this page

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