- recipe pegasuspy
An efficient Python analysis tool which scales to transcriptomes of millions of single cells.
- Homepage:
- Documentation:
- License:
BSD / BSD-3-Clause
- Recipe:
- Links:
Pegasus is a tool for analyzing transcriptomes of millions of single cells. It is a command line tool, a python package and a base for Cloud-based analysis workflows.
- package pegasuspy¶
- versions:
1.10.0-1,1.10.0-0,1.9.1.post1-0,1.9.0-0,1.8.1-0,1.7.1-2,1.7.1-1,1.7.1-0,1.6.0-0,1.10.0-1,1.10.0-0,1.9.1.post1-0,1.9.0-0,1.8.1-0,1.7.1-2,1.7.1-1,1.7.1-0,1.6.0-0,1.5.0-0,1.2.0-1,1.2.0-0- depends adjusttext:
- depends anndata:
>=0.7.1- depends demuxem:
- depends docopt:
- depends forceatlas2-python:
- depends harmony-pytorch:
- depends hnswlib:
- depends joblib:
>=0.14- depends leidenalg:
>=0.8.0- depends libgcc-ng:
>=12- depends lightgbm:
>=2.2.1- depends loompy:
>=3- depends louvain:
>=0.7.0- depends matplotlib-base:
>=3.7.0- depends natsort:
- depends numba:
- depends numpy:
- depends pandas:
>=1.2.0- depends pegasusio:
>=0.9.1- depends psutil:
- depends pybind11:
- depends pyfit-sne:
>=1.1.1- depends python:
>=3.10,<3.11.0a0- depends python-igraph:
>=0.8.0- depends python_abi:
3.10.* *_cp310- depends scikit-learn:
>=0.23.2- depends scikit-misc:
- depends scipy:
>=1.7- depends seaborn:
>=0.13.0- depends statsmodels:
- depends tbb:
- depends threadpoolctl:
- depends umap-learn:
>=0.5.2- depends wordcloud:
- depends xlsxwriter:
- 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 pegasuspy and update with:: mamba update pegasuspy
To create a new environment, run:
mamba create --name myenvname pegasuspy
with
myenvnamebeing 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/pegasuspy:<tag> (see `pegasuspy/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/pegasuspy/README.html)
