recipe sccaller

Dong X et al. Accurate identification of single-nucleotide variants in whole-genome-amplified single cells. Nat Methods. 2017 May;14(5):491-493. doi: 10.1038/nmeth.4227

Homepage:

https://github.com/biosinodx/SCcaller

License:

GPL-3

Recipe:

/sccaller/meta.yaml

Links:

doi: 10.1038/nmeth.4227

package sccaller

(downloads) docker_sccaller

versions:

2.0.0-1,  2.0.0-0,  1.21-0,  1.2-1,  1.2-0

depends numpy:

depends pysam:

>=0.15.1

depends python:

<3

depends samtools:

>=1.9

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 sccaller

and update with::

   mamba update sccaller

To create a new environment, run:

mamba create --name myenvname sccaller

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/sccaller:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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