recipe pixelator

A command-line tool and library to process and analyze sequencing data from Molecular Pixelation (MPX) assays.

Homepage:

https://github.com/PixelgenTechnologies/pixelator

License:

MIT / MIT

Recipe:

/pixelator/meta.yaml

package pixelator

(downloads) docker_pixelator

versions:

0.18.1-00.17.1-00.17.0-00.16.2-00.15.2-00.15.0-00.14.0-00.13.1-0

depends anndata:

>=0.8.0

depends click:

depends cssselect:

depends cutadapt:

>=4.2

depends fastp:

depends fastparquet:

>=2023.8.0,<2024.0.0

depends fsspec:

>=2023.12.2,<2024.0.0

depends graspologic:

>=3.3.0,<4.0.0

depends importlib-resources:

>=5.12.0,<6.0.0

depends lxml:

depends numba:

>=0.56.4

depends numpy:

<1.24.0

depends pandas:

>=2.0.0,<3.0.0

depends plotly:

depends polars:

0.20.19.*

depends pyarrow:

>=14,<16

depends pydantic:

>=2.0,<2.5

depends pyfastx:

depends python:

>=3.10,<3.12

depends python-annoy:

<=1.17.0

depends ruamel.yaml:

>=0.17.21,<0.18.0

depends scanpy:

depends scipy:

<1.13.0

depends semver:

>=3.0.0,<4.0.0

depends typing_extensions:

depends umi_tools:

>=1.1.4,<2.0.0

depends xopen:

<1.9.0

depends yapf:

depends yappi:

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 pixelator

and update with::

   mamba update pixelator

To create a new environment, run:

mamba create --name myenvname pixelator

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/pixelator:<tag>

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

Download stats