scimilarity

Name	scimilarity JSON
Version	0.3.0 JSON
	download
home_page	https://github.com/genentech/scimilarity
Summary	Single cell embedding into latent space and retrieving with kNN.
upload_time	2024-11-19 21:46:14
maintainer	None
docs_url	None
author	Graham Heimberg, Tony Kuo, Nathaniel Diamant, Omar Salem, Héctor Corrada Bravo, Jason A. Vander Heiden
requires_python	>=3.7
license	None
keywords	single-cell embedding/retrieval
VCS
bugtrack_url
requirements	No requirements were recorded.
Travis-CI	No Travis.
coveralls test coverage	No coveralls.

            SCimilarity
================================================================================

**SCimilarity** is a unifying representation of single cell expression profiles
that quantifies similarity between expression states and generalizes to
represent new studies without additional training.

This enables a novel cell search capability, which sifts through millions of
profiles to find cells similar to a query cell state and allows researchers to
quickly and systematically leverage massive public scRNA-seq atlases to learn
about a cell state of interest.

Tutorials and API documentation can be found at:
https://genentech.github.io/scimilarity/index.html

Pretrained model weights, embeddings, kNN graphs, a single-cell metadata
can be downloaded from:
https://zenodo.org/records/10685499

A docker container with SCimilarity preinstalled can be pulled from:
https://ghcr.io/genentech/scimilarity

            

Raw data

            {
    "_id": null,
    "home_page": "https://github.com/genentech/scimilarity",
    "name": "scimilarity",
    "maintainer": null,
    "docs_url": null,
    "requires_python": ">=3.7",
    "maintainer_email": null,
    "keywords": "single-cell embedding/retrieval",
    "author": "Graham Heimberg, Tony Kuo, Nathaniel Diamant, Omar Salem, H\u00e9ctor Corrada Bravo, Jason A. Vander Heiden",
    "author_email": "heimberg@gene.com",
    "download_url": "https://files.pythonhosted.org/packages/28/cd/d25a3965eaa4d7d7200075b2251aedc970915480784005dd4f9498807abb/scimilarity-0.3.0.tar.gz",
    "platform": "any",
    "description": "SCimilarity\n================================================================================\n\n**SCimilarity** is a unifying representation of single cell expression profiles\nthat quantifies similarity between expression states and generalizes to\nrepresent new studies without additional training.\n\nThis enables a novel cell search capability, which sifts through millions of\nprofiles to find cells similar to a query cell state and allows researchers to\nquickly and systematically leverage massive public scRNA-seq atlases to learn\nabout a cell state of interest.\n\nTutorials and API documentation can be found at:\nhttps://genentech.github.io/scimilarity/index.html\n\nPretrained model weights, embeddings, kNN graphs, a single-cell metadata\ncan be downloaded from:\nhttps://zenodo.org/records/10685499\n\nA docker container with SCimilarity preinstalled can be pulled from:\nhttps://ghcr.io/genentech/scimilarity\n",
    "bugtrack_url": null,
    "license": null,
    "summary": "Single cell embedding into latent space and retrieving with kNN.",
    "version": "0.3.0",
    "project_urls": {
        "Documentation": "https://genentech.github.io/scimilarity",
        "Homepage": "https://github.com/genentech/scimilarity",
        "Source": "https://github.com/genentech/scimilarity",
        "Tracker": "https://github.com/genentech/scimilarity/issues"
    },
    "split_keywords": [
        "single-cell",
        "embedding/retrieval"
    ],
    "urls": [
        {
            "comment_text": "",
            "digests": {
                "blake2b_256": "729a0fbee246cc94d3591beafe1161c43ae76d2cc67cea01e2c01cf0e4a31163",
                "md5": "a33d7d5ebc6f4d5df1efa56e750aa9f4",
                "sha256": "86e95f0dcc688b6272489635c8b8a54702efc23f2d96cb32587d4d9d19e0464d"
            },
            "downloads": -1,
            "filename": "scimilarity-0.3.0-py3-none-any.whl",
            "has_sig": false,
            "md5_digest": "a33d7d5ebc6f4d5df1efa56e750aa9f4",
            "packagetype": "bdist_wheel",
            "python_version": "py3",
            "requires_python": ">=3.7",
            "size": 52501,
            "upload_time": "2024-11-19T21:46:12",
            "upload_time_iso_8601": "2024-11-19T21:46:12.845843Z",
            "url": "https://files.pythonhosted.org/packages/72/9a/0fbee246cc94d3591beafe1161c43ae76d2cc67cea01e2c01cf0e4a31163/scimilarity-0.3.0-py3-none-any.whl",
            "yanked": false,
            "yanked_reason": null
        },
        {
            "comment_text": "",
            "digests": {
                "blake2b_256": "28cdd25a3965eaa4d7d7200075b2251aedc970915480784005dd4f9498807abb",
                "md5": "cb38956af385abb146c60831870d1352",
                "sha256": "e8a115fa0b8fc929e2ec24cc0bc46bb925dc73bece1287318aafd2ae946ad9c8"
            },
            "downloads": -1,
            "filename": "scimilarity-0.3.0.tar.gz",
            "has_sig": false,
            "md5_digest": "cb38956af385abb146c60831870d1352",
            "packagetype": "sdist",
            "python_version": "source",
            "requires_python": ">=3.7",
            "size": 7571150,
            "upload_time": "2024-11-19T21:46:14",
            "upload_time_iso_8601": "2024-11-19T21:46:14.639914Z",
            "url": "https://files.pythonhosted.org/packages/28/cd/d25a3965eaa4d7d7200075b2251aedc970915480784005dd4f9498807abb/scimilarity-0.3.0.tar.gz",
            "yanked": false,
            "yanked_reason": null
        }
    ],
    "upload_time": "2024-11-19 21:46:14",
    "github": true,
    "gitlab": false,
    "bitbucket": false,
    "codeberg": false,
    "github_user": "genentech",
    "github_project": "scimilarity",
    "travis_ci": false,
    "coveralls": false,
    "github_actions": true,
    "tox": true,
    "lcname": "scimilarity"
}