- recipe vpt
Command line tool for highly parallelized processing of Vizgen data
- Homepage:
- License:
Apache-2.0
- Recipe:
- package vpt¶
- versions:
1.3.0-0- depends boto3:
>=1.17- depends dask-core:
>=2023.2.0- depends distributed:
>=2023.2.0- depends fastparquet:
- depends fsspec:
- depends gcsfs:
- depends geopandas:
>=0.13.2- depends h5py:
>=3.7.0- depends ipykernel:
- depends jinja2:
- depends leidenalg:
>=0.10.1- depends matplotlib-base:
<=3.7.0- depends numpy:
>=1.24.3- depends pandas:
>=2.0.3- depends plotly:
>=5.17.0- depends pretty_html_table:
>=0.9.16- depends pyarrow:
>=8.0.0- depends python:
>=3.9,<3.11- depends python-dotenv:
>=0.20.0- depends python-kaleido:
- depends pytorch:
>=2.0.0,!=2.0.1,!=2.1.0- depends pyvips:
>=2.2.1- depends rasterio:
>=1.3.0- depends s3fs:
- depends scanpy:
- depends scipy:
>=1.8.1- depends shapely:
>=2.0.0- depends vpt-core:
>=1.2.0- depends vpt-segmentation-packing:
>=1.0.0- depends wrapt_timeout_decorator:
>=1.5.1- 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 vpt and update with:: mamba update vpt
To create a new environment, run:
mamba create --name myenvname vpt
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/vpt:<tag> (see `vpt/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/vpt/README.html)
