cellrank

CellRank: dynamics from multi-view single-cell data

These details have not been verified by PyPI

Project links

Project description

CellRank: dynamics from multi-view single-cell data

docs/_static/img/light_mode_overview.png#gh-light-mode-only

docs/_static/img/dark_mode_overview.png#gh-dark-mode-only

CellRank is a modular framework to study cellular dynamics based on Markov state modeling of multi-view single-cell data. See our documentation or manuscript to learn more.

CellRank scales to large cell numbers, is fully compatible with the scverse ecosystem, and is easy to use. In the backend, it is powered by pyGPCCA (Reuter et al. (2018)). Feel free to open an issue or send us an email if you encounter a bug, need our help or just want to make a comment/suggestion.

CellRank’s key applications

Estimate differentiation direction based on a varied number of biological priors, including RNA velocity (La Manno et al. (2018), Bergen et al. (2020)), any pseudotime or developmental potential, experimental time points, and more.
Compute initial, terminal and intermediate macrostates.
Infer fate probabilities and driver genes.
Visualize and cluster gene expression trends.
… and much more, check out our documentation.

Project details

These details have not been verified by PyPI

Project links

Release history Release notifications | RSS feed

2.0.6

Sep 15, 2024

2.0.5

Aug 4, 2024

2.0.4

Apr 8, 2024

2.0.3

Mar 17, 2024

2.0.2

Nov 27, 2023

2.0.1

Nov 3, 2023

This version

2.0.0

Jul 20, 2023

1.5.1

Jan 13, 2022

1.5.0

Sep 13, 2021

1.4.0

Jun 30, 2021

1.3.1

Apr 9, 2021

1.3.0

Mar 28, 2021

1.2.0

Feb 3, 2021

1.1.0

Nov 17, 2020

1.0.0

Oct 17, 2020

1.0.0rc12 pre-release

Sep 29, 2020

1.0.0rc11 pre-release

Sep 25, 2020

1.0.0rc10 pre-release

Sep 20, 2020

1.0.0rc9 pre-release

Sep 14, 2020

1.0.0rc8 pre-release

Sep 8, 2020

1.0.0rc7 pre-release

Sep 3, 2020

1.0.0rc6 pre-release

Aug 27, 2020

1.0.0rc5 pre-release

Aug 22, 2020

1.0.0rc4 pre-release

Aug 17, 2020

1.0.0rc2 pre-release

Aug 9, 2020

1.0.0rc1 pre-release

Aug 9, 2020

1.0.0rc0 pre-release

Jul 14, 2020

1.0.0b8 pre-release

Jul 12, 2020

1.0.0b7 pre-release

Jul 12, 2020

1.0.0b6 pre-release

Jul 12, 2020

1.0.0b5 pre-release

Jul 12, 2020

1.0.0b4 pre-release

Jul 11, 2020

1.0.0b3 pre-release

Jul 3, 2020

1.0.0b2 pre-release

Jul 2, 2020

Download files

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

Source Distribution

cellrank-2.0.0.tar.gz (189.7 kB view details)

Uploaded Jul 20, 2023 Source

Built Distribution

cellrank-2.0.0-py3-none-any.whl (222.5 kB view details)

Uploaded Jul 20, 2023 Python 3

File details

Details for the file cellrank-2.0.0.tar.gz.

File metadata

Download URL: cellrank-2.0.0.tar.gz
Upload date: Jul 20, 2023
Size: 189.7 kB
Tags: Source
Uploaded using Trusted Publishing? No
Uploaded via: twine/4.0.2 CPython/3.11.4

File hashes

Hashes for cellrank-2.0.0.tar.gz
Algorithm	Hash digest
SHA256	`fd6b1cc6a015df119dd8bfcd1129e86ee6aa871121aeeb3d1c1f42c71bd2215b`
MD5	`1555498bc14586f81af1da9230ea99e2`
BLAKE2b-256	`5c2748ceed14582210876b5f5c2b64e63a7cef544fba44af23981525bed0fffa`

See more details on using hashes here.

File details

Details for the file cellrank-2.0.0-py3-none-any.whl.

File metadata

Download URL: cellrank-2.0.0-py3-none-any.whl
Upload date: Jul 20, 2023
Size: 222.5 kB
Tags: Python 3
Uploaded using Trusted Publishing? No
Uploaded via: twine/4.0.2 CPython/3.11.4

File hashes

Hashes for cellrank-2.0.0-py3-none-any.whl
Algorithm	Hash digest
SHA256	`caaa7caa35da11aa68c20ca07ee5c7fd227c7b1db2ff1c401049244018661c9b`
MD5	`5d4e7f7de852704ea7b62b208679bac4`
BLAKE2b-256	`093a30e0af21d2f83dc1c45764910958b2d95ad9b8750d8c781ec8836105446f`