recipe ucsc-cell-browser

A browser for single-cell data, main site at http://cells.ucsc.edu. UCSC Cellbrowser, an interactive browser for single cell data. Includes importers and basic pipelines for text files, Seurat, Scanpy and Cellranger. All Javascript - does not require a server backend.

Homepage:

https://cells.ucsc.edu

Documentation:

https://cellbrowser.readthedocs.io/en/master/

Developer docs:

https://github.com/maximilianh/cellBrowser

License:

GPL3 / GPL-3.0-or-later

Recipe:

/ucsc-cell-browser/meta.yaml

Links:

doi: 10.1093/bioinformatics/btab503

package ucsc-cell-browser

(downloads) docker_ucsc-cell-browser

versions:
1.2.5-0,  1.2.4-0,  1.2.3-0,  1.2.2-0,  1.1.1-1,  1.1.1-0,  1.1.0-0,  1.0.1-0,  1.0.0-0, 

1.2.5-0,  1.2.4-0,  1.2.3-0,  1.2.2-0,  1.1.1-1,  1.1.1-0,  1.1.0-0,  1.0.1-0,  1.0.0-0,  0.7.15-0,  0.7.14-0,  0.7.13-0,  0.7.11-0,  0.7.10-0,  0.7.9-0,  0.7.8-0,  0.7.7-0,  0.7.6-0,  0.7.5-0,  0.7.4-0,  0.7.3-0,  0.7.2-0,  0.7.1-0,  0.7-0,  0.5.49-0,  0.5.46-0,  0.5.45-0,  0.5.43-1,  0.5.43-0,  0.5.38-0,  0.5.37-0,  0.5.21-0,  0.4.56-0,  0.4.38-0,  0.4.35-0,  0.4.23-1,  0.4.23-0

depends anndata:

depends numpy:

depends python:

>=3.6,<3.12

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 ucsc-cell-browser

and update with::

   mamba update ucsc-cell-browser

To create a new environment, run:

mamba create --name myenvname ucsc-cell-browser

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/ucsc-cell-browser:<tag>

(see `ucsc-cell-browser/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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