recipe bioconductor-hippo

Heterogeneity-Induced Pre-Processing tOol

Homepage

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

License

GPL (>=2)

Recipe

/bioconductor-hippo/meta.yaml

For scRNA-seq data, it selects features and clusters the cells simultaneously for single-cell UMI data. It has a novel feature selection method using the zero inflation instead of gene variance, and computationally faster than other existing methods since it only relies on PCA+Kmeans rather than graph-clustering or consensus clustering.

package bioconductor-hippo

Versions

1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0,  1.1.0-0,  1.0.0-0

Depends

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• r-base >=4.1,<4.2.0a0

• r-dplyr

• r-ggplot2

• r-ggrepel

• r-gridextra

• r-irlba

• r-magrittr

• r-matrix

• r-reshape2

• r-rlang

• r-rtsne

• r-umap

Required By

Installation

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

conda install bioconductor-hippo

and update with:

conda update bioconductor-hippo

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

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