SpatialData IO for common techs

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  • License: BSD 3-Clause License Copyright (c) 2022, scverse All rights reserved. Redistribution and use in so...
  • Author: scverse
  • Maintainer: scverse
  • Requires: Python >=3.9

Project description

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spatialdata-io: convenient readers for loading common formats into SpatialData

Tests Documentation

This package contains reader functions to load common spatial omics formats into SpatialData. Currently, we provide support for:

  • NanoString CosMx
  • MCMICRO
  • Steinbock
  • 10x Genomics Visium
  • 10x Genomics Xenium

Getting started

Please refer to the documentation. In particular, the

Installation

You need to have Python 3.8 or newer installed on your system. If you don't have Python installed, we recommend installing Miniconda.

There are several alternative options to install spatialdata-io:

  1. Install the latest release of spatialdata-io from PyPI:
pip install spatialdata-io
  1. Install the latest development version:
pip install git+https://github.com/scverse/spatialdata-io.git@main

Contact

For questions and help requests, you can reach out in the scverse discourse. If you found a bug, please use the issue tracker.

Citation

L Marconato*, G Palla*, KA Yamauchi*, I Virshup*, E Heidari, T Treis, M Toth, R Shrestha, H Vöhringer, W Huber, M Gerstung, J Moore, FJ Theis, O Stegle, bioRxiv, 2023. * = equal contribution

Project details

Verified details

These details have been verified by PyPI
Maintainers
Avatar for kevin.yamauchi from gravatar.com kevin.yamauchi Avatar for LucaMarconato from gravatar.com LucaMarconato Avatar for ttreis from gravatar.com ttreis

Unverified details

These details have not been verified by PyPI
Project links
Meta
  • License: BSD 3-Clause License Copyright (c) 2022, scverse All rights reserved. Redistribution and use in so...
  • Author: scverse
  • Maintainer: scverse
  • Requires: Python >=3.9

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0.1.5

0.1.4

0.1.3.post0

0.1.3

0.1.2

0.1.1

0.1.0

0.1.0rc0 pre-release

0.0.9

0.0.8

0.0.7

0.0.6

0.0.5

0.0.4

This version

0.0.3

0.0.2

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