recipe dropest

Pipeline for initial analysis of droplet-based single-cell RNA-seq data

Homepage:

https://github.com/hms-dbmi/dropEst/

License:

GPL3

Recipe:

/dropest/meta.yaml

package dropest

versions:

0.8.6-7,  0.8.6-6,  0.8.6-5,  0.8.6-4,  0.8.6-3,  0.8.6-2,  0.8.6-1,  0.8.6-0,  0.8.5-1, 

0.8.6-7,  0.8.6-6,  0.8.6-5,  0.8.6-4,  0.8.6-3,  0.8.6-2,  0.8.6-1,  0.8.6-0,  0.8.5-1,  0.8.5-0

depends bamtools:

>=2.5.1,<2.5.2.0a0

depends boost:

>=1.78.0,<1.78.1.0a0

depends bzip2:

>=1.0.8,<2.0a0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends r-base:

>=4.2,<4.3.0a0

depends r-dplyr:

depends r-ggplot2:

depends r-ks:

depends r-magrittr:

depends r-matrix:

depends r-pcapp:

depends r-rcpp:

depends r-rcppeigen:

depends r-rcppprogress:

depends r-rinside:

depends zlib:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install dropest

and update with::

   mamba update dropest

To create a new environment, run:

mamba create --name myenvname dropest

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull quay.io/biocontainers/dropest:<tag>

(see `dropest/tags`_ for valid values for ``<tag>``)

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