Skip to main content

Multimodal Datasets in MuData format

Project description

Multimodal Datasets

mudatasets provides some public datasets with multimodal data, primarily focusing on multimodal omics datasets.

MuData library | MuData documentation

Installation

PyPi version

# Stable, with muon
pip install "mudatasets[muon]"
# Dev
pip install git+https://github.com/gtca/mudatasets

Getting started

import mudatasets as mds

Find available datasets

mds.list_datasets()

Load a dataset

mdata = mds.load("pbmc3k_multiome")
print(mdata)

Some common attributes for .load() are:

  • data_dir= for location to save the dataset (~/mudatasets/ by default)
  • with_info=True for also returning the second argument with dataset description as a dictionary (False by default)
  • backed=True for reading data in a backed format, only for .h5mu and .h5ad files (True by default)
  • files= for downloading specific files from the dataset
  • full=True for downloading all the files defined for the dataset (False by default)

Get dataset info

mds.info("pbmc3k_multiome")

List dataset file names

mds.list_files("pbmc3k_multiome")

Webpage with all the files

mds.serve_webpage(port=8000)

This command will launch a server providing a simple (temporarily created) HTML page at http://localhost:8000 with files across all of the datasets listed.

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

mudatasets-0.0.2.tar.gz (9.5 kB view details)

Uploaded Source

Built Distribution

mudatasets-0.0.2-py3-none-any.whl (12.4 kB view details)

Uploaded Python 3

File details

Details for the file mudatasets-0.0.2.tar.gz.

File metadata

  • Download URL: mudatasets-0.0.2.tar.gz
  • Upload date:
  • Size: 9.5 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/4.0.1 CPython/3.10.8

File hashes

Hashes for mudatasets-0.0.2.tar.gz
Algorithm Hash digest
SHA256 a7b703059201756e2abd4c83d6ccd3b37fa18e2f4e1760959c71195dcaae28de
MD5 432e2e278a40babdc04dd4e0a44e1cc3
BLAKE2b-256 19ecab90ad6f592e67c8c2845bd66681c38279063820f5ad13cfd363927fc79e

See more details on using hashes here.

Provenance

File details

Details for the file mudatasets-0.0.2-py3-none-any.whl.

File metadata

  • Download URL: mudatasets-0.0.2-py3-none-any.whl
  • Upload date:
  • Size: 12.4 kB
  • Tags: Python 3
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/4.0.1 CPython/3.10.8

File hashes

Hashes for mudatasets-0.0.2-py3-none-any.whl
Algorithm Hash digest
SHA256 a119b5dfefd783915eb5eb626e7bdebeba19db030bb801075307afd83165c9fe
MD5 59ad1791b30a28aca277142a2183c829
BLAKE2b-256 ea70f65a1a4c3fe16b7a8de70f5d5514cd3c550aea103a291da8221f02865d6f

See more details on using hashes here.

Provenance

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page