- recipe scirpy
A Scanpy extension for analyzing single-cell T-cell and B-cell receptor (TCR/BCR) sequencing data.
- Homepage:
- Developer docs:
- License:
BSD / BSD-3-Clause
- Recipe:
- Links:
- package scirpy¶
- versions:
0.19.0-0
,0.18.0-0
,0.17.2-0
,0.17.1-0
,0.17.0-0
,0.16.1-0
,0.16.0-0
,0.15.0-0
,0.14.0-0
,0.19.0-0
,0.18.0-0
,0.17.2-0
,0.17.1-0
,0.17.0-0
,0.16.1-0
,0.16.0-0
,0.15.0-0
,0.14.0-0
,0.13.1-0
,0.13.0-1
,0.13.0-0
,0.12.2-0
,0.12.1-0
,0.12.0-0
,0.11.2-0
,0.11.1-0
,0.11.0-0
,0.10.1-0
,0.10.0-0
,0.9.1-0
,0.9.0-0
,0.8.0-0
,0.7.1-0
,0.7.0-0
,0.6.1-0
,0.6.0-0
,0.5.0-0
,0.4.2-0
,0.4.1-0
,0.4-0
,0.3-0
,0.2-0
,0.1.2-0
,0.1.1-0
- depends adjusttext:
>=0.7
- depends airr:
>=1.2
- depends anndata:
>=0.9
- depends awkward:
>=2.1.0
- depends joblib:
>=1.3.1
- depends mudata:
>=0.2.3
- depends networkx:
>=2.5
- depends numba:
>=0.41.0
- depends numpy:
>=1.17.0
- depends pandas:
>=1.5
- depends pooch:
>=1.7.0
- depends python:
>=3.10
- depends python-igraph:
>0.10.1|<0.10.0
- depends python-levenshtein:
- depends scanpy:
>=1.9.3
- depends scikit-learn:
- depends scipy:
- depends squarify:
- depends tqdm:
>=4.63
- 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 scirpy and update with:: mamba update scirpy
To create a new environment, run:
mamba create --name myenvname scirpy
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/scirpy:<tag> (see `scirpy/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/scirpy/README.html)