recipe sincei

A user-friendly toolkit for QC, counting, clustering and plotting of single-cell (epi)genomics data.

Homepage:

https://github.com/bhardwaj-lab/sincei

License:

MIT

Recipe:

/sincei/meta.yaml

Links:

biotools: sincei, doi: 10.5281/zenodo.8105536

package sincei

versions:

0.4-1,  0.4-0,  0.3.1-0

depends anndata:

depends deeptools:

depends gensim:

depends importlib-metadata:

depends leidenalg:

depends loompy:

depends networkx:

depends pandas:

depends python:

>=3.8

depends python-igraph:

depends pytorch:

depends scanpy:

depends session-info:

depends umap-learn:

requirements:

additional platforms:

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 sincei

and update with::

   mamba update sincei

To create a new environment, run:

mamba create --name myenvname sincei

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/sincei:<tag>

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

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