recipe bioconductor-scfind

Recently a very large collection of single-cell RNA-seq (scRNA-seq) datasets has been generated and publicly released. For the collection to be useful, the information must be organized in a way that supports queries that are relevant to researchers. `scfind` builds an index from scRNA-seq datasets which organizes the information in a suitable and compact manner so that the datasets can be very efficiently searched for either cells or cell types in which a given list of genes is expressed.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/scfind.html

License

GPL-3

Recipe

/bioconductor-scfind/meta.yaml

package bioconductor-scfind

(downloads) docker_bioconductor-scfind

Versions

1.4.0-0

Depends bioconductor-singlecellexperiment

>=1.4.0,<1.5.0

Depends bioconductor-summarizedexperiment

>=1.12.0,<1.13.0

Depends libgcc-ng

>=7.3.0

Depends libstdcxx-ng

>=7.3.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-bit

Depends r-dplyr

Depends r-hash

Depends r-rcpp

>=0.12.12

Depends r-reshape2

Requirements

Installation

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

conda install bioconductor-scfind

and update with:

conda update bioconductor-scfind

or use the docker container:

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

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