scanpy

Single-Cell Analysis in Python.

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Scanpy – Single-Cell Analysis in Python

Scanpy is a scalable toolkit for analyzing single-cell gene expression data. It includes preprocessing, visualization, clustering, pseudotime and trajectory inference, differential expression testing and simulation of gene regulatory networks. The Python-based implementation efficiently deals with data sets of more than one million cells and enables easy integration of advanced machine learning algorithms.

Read the documentation. Learn more about conceptual ideas in our preprint.

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Release history Release notifications | RSS feed

1.10.4

Nov 12, 2024

1.10.3

Sep 17, 2024

1.10.2

Jun 25, 2024

1.10.1

Apr 9, 2024

1.10.0

Mar 26, 2024

1.10.0rc2 pre-release

Feb 23, 2024

1.10.0rc1 pre-release

Feb 22, 2024

1.9.8

Jan 26, 2024

1.9.7

Jan 25, 2024

1.9.6

Oct 31, 2023

1.9.5

Sep 8, 2023

1.9.4

Aug 24, 2023

1.9.3

Mar 2, 2023

1.9.2

Feb 16, 2023

1.9.1

Apr 5, 2022

1.9.0

Apr 1, 2022

1.8.2

Nov 3, 2021

1.8.1

Jul 7, 2021

1.8.0

Jun 29, 2021

1.7.2

Apr 7, 2021

1.7.1

Feb 24, 2021

1.7.0

Feb 3, 2021

1.7.0rc1 pre-release

Jan 14, 2021

1.6.1

Jan 14, 2021

1.6.0

Aug 17, 2020

1.5.1

May 21, 2020

1.5.0

May 19, 2020

1.5.0a1 pre-release

May 18, 2020

1.4.6

Mar 17, 2020

1.4.5.1

Feb 13, 2020

1.4.5.post3

Jan 24, 2020

1.4.5.post2

Jan 9, 2020

1.4.5.post1

Jan 8, 2020

1.4.5

Dec 30, 2019

1.4.4.post1

Jul 29, 2019

1.4.4

Jul 20, 2019

1.4.3

May 14, 2019

1.4.2

May 6, 2019

1.4.1

Apr 26, 2019

1.4

Feb 5, 2019

1.3.8

Feb 5, 2019

1.3.7

Jan 2, 2019

1.3.6

Dec 11, 2018

1.3.5

Dec 9, 2018

1.3.4

Nov 26, 2018

1.3.3

Nov 5, 2018

1.3.2

Oct 5, 2018

1.3.1

Sep 3, 2018

1.3

Sep 3, 2018

1.2.2

Jun 8, 2018

1.2.1

Jun 8, 2018

1.2.0

Jun 8, 2018

1.1

Jun 1, 2018

1.1a2 pre-release

May 21, 2018

1.1a1 pre-release

May 15, 2018

1.0.4

Apr 16, 2018

1.0.3.post1

Apr 16, 2018

1.0.3

Apr 11, 2018

1.0.2

Apr 8, 2018

1.0.1.post1

Apr 16, 2018

1.0.1

Apr 3, 2018

1.0

Mar 29, 2018

0.4.4

Feb 26, 2018

0.4.3

Feb 9, 2018

0.4.2

Jan 7, 2018

0.4.1

Jan 1, 2018

0.4

Dec 24, 2017

0.3.2

Nov 29, 2017

0.3.1

Nov 17, 2017

0.3

Nov 17, 2017

0.2.9.1

Nov 7, 2017

0.2.9

Oct 25, 2017

This version

0.2.8

Aug 25, 2017

0.2.7

Aug 23, 2017

0.2.6

Aug 4, 2017

0.2.5

Jul 31, 2017

0.2.4

Jul 27, 2017

0.2.3.5

Jul 25, 2017

0.2.3.4

Jul 25, 2017

0.2.3

Jul 24, 2017

0.2.1

Jul 24, 2017

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