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How to install scanpy via python pip

scanpy - Single-Cell Analysis in Python., it belongs to Classifiers:

- Framework :: Jupyter
- Operating System :: MacOS :: MacOS X
- Operating System :: POSIX :: Linux
- Topic :: Scientific/Engineering :: Bio-Informatics
- Topic :: Scientific/Engineering :: Visualization

When you know about this project and you want to new install scanpy to support your project or you get trouble as ModuleNotFoundError: No module named "scanpy" or ImportError: cannot import name "scanpy" in your project, let follow this tutorial to install scanpy

Installation:

Step 1: First, ensure you installed pip in your os, to check pip has been installed on your computer

In Windows (CMD):

py -m pip --version

In Unix/macOS:

python3 -m pip --version

Ensure pip, setuptools, and wheel are up to date:

In Windows (CMD):

py -m pip install --upgrade pip setuptools wheel

In Unix/macOS:

python3 -m pip install --upgrade pip setuptools wheel

Optional - If you want to install in virtual environment:

In Windows (CMD):

- Install virtualenv - if you installed it, please ignore

py -m pip install --user virtualenv

- Create a virtual environment

py -m venv test_scanpy_env

- Active the virtual environment

test_scanpy_env\Scripts\active

In Unix/macOS:

- Install virtualenv - if you installed it, please ignore

pip3 install virtualenv

- Create a virtual environment

python3 -m venv test_scanpy_env

- Active the virtual environment

source test_scanpy_env/bin/active

Step 2: OK, now, let flow below content to start the installation scanpy

To install scanpy on Windows(CMD):

py -m pip install scanpy

To install scanpy on Unix/macOs:

pip install scanpy

Step 3: If you want to install a specific scanpy version, add ==<scanpy version> to the end command line

Example: 

pip install scanpy==0.2.1

Please see the version list below table:

VersionReleased dateCommand
scanpy 1.9.12022-04-05T15:33:22Windows:

py -m pip install scanpy==1.9.1

Unix/macOs:

pip install scanpy==1.9.1

scanpy 1.9.02022-04-01T14:36:36Windows:

py -m pip install scanpy==1.9.0

Unix/macOs:

pip install scanpy==1.9.0

scanpy 1.8.22021-11-03T17:50:10Windows:

py -m pip install scanpy==1.8.2

Unix/macOs:

pip install scanpy==1.8.2

scanpy 1.8.12021-07-07T10:44:55Windows:

py -m pip install scanpy==1.8.1

Unix/macOs:

pip install scanpy==1.8.1

scanpy 1.8.02021-06-29T07:58:43Windows:

py -m pip install scanpy==1.8.0

Unix/macOs:

pip install scanpy==1.8.0

scanpy 1.7.22021-04-07T05:29:55Windows:

py -m pip install scanpy==1.7.2

Unix/macOs:

pip install scanpy==1.7.2

scanpy 1.7.12021-02-24T07:30:53Windows:

py -m pip install scanpy==1.7.1

Unix/macOs:

pip install scanpy==1.7.1

scanpy 1.7.02021-02-03T05:48:13Windows:

py -m pip install scanpy==1.7.0

Unix/macOs:

pip install scanpy==1.7.0

scanpy 1.6.12021-01-14T11:07:03Windows:

py -m pip install scanpy==1.6.1

Unix/macOs:

pip install scanpy==1.6.1

scanpy 1.6.02020-08-17T11:36:22Windows:

py -m pip install scanpy==1.6.0

Unix/macOs:

pip install scanpy==1.6.0

scanpy 1.5.12020-05-21T08:44:31Windows:

py -m pip install scanpy==1.5.1

Unix/macOs:

pip install scanpy==1.5.1

scanpy 1.5.02020-05-19T07:25:42Windows:

py -m pip install scanpy==1.5.0

Unix/macOs:

pip install scanpy==1.5.0

scanpy 1.4.62020-03-17T15:32:19Windows:

py -m pip install scanpy==1.4.6

Unix/macOs:

pip install scanpy==1.4.6

scanpy 1.4.5.12020-02-13T14:45:45Windows:

py -m pip install scanpy==1.4.5.1

Unix/macOs:

pip install scanpy==1.4.5.1

scanpy 1.4.5.post32020-01-24T13:52:23Windows:

py -m pip install scanpy==1.4.5.post3

Unix/macOs:

pip install scanpy==1.4.5.post3

scanpy 1.4.5.post22020-01-09T21:45:17Windows:

py -m pip install scanpy==1.4.5.post2

Unix/macOs:

pip install scanpy==1.4.5.post2

scanpy 1.4.5.post12020-01-08T10:23:29Windows:

py -m pip install scanpy==1.4.5.post1

Unix/macOs:

pip install scanpy==1.4.5.post1

scanpy 1.4.52019-12-30T01:00:32Windows:

py -m pip install scanpy==1.4.5

Unix/macOs:

pip install scanpy==1.4.5

scanpy 1.4.4.post12019-07-29T12:30:58Windows:

py -m pip install scanpy==1.4.4.post1

Unix/macOs:

pip install scanpy==1.4.4.post1

scanpy 1.4.42019-07-20T07:22:32Windows:

py -m pip install scanpy==1.4.4

Unix/macOs:

pip install scanpy==1.4.4

scanpy 1.4.32019-05-14T14:02:50Windows:

py -m pip install scanpy==1.4.3

Unix/macOs:

pip install scanpy==1.4.3

scanpy 1.4.22019-05-06T09:02:34Windows:

py -m pip install scanpy==1.4.2

Unix/macOs:

pip install scanpy==1.4.2

scanpy 1.4.12019-04-26T11:31:30Windows:

py -m pip install scanpy==1.4.1

Unix/macOs:

pip install scanpy==1.4.1

scanpy 1.42019-02-05T12:41:09Windows:

py -m pip install scanpy==1.4

Unix/macOs:

pip install scanpy==1.4

scanpy 1.3.82019-02-05T12:32:43Windows:

py -m pip install scanpy==1.3.8

Unix/macOs:

pip install scanpy==1.3.8

scanpy 1.3.72019-01-02T01:55:06Windows:

py -m pip install scanpy==1.3.7

Unix/macOs:

pip install scanpy==1.3.7

scanpy 1.3.62018-12-11T21:54:30Windows:

py -m pip install scanpy==1.3.6

Unix/macOs:

pip install scanpy==1.3.6

scanpy 1.3.52018-12-09T07:09:06Windows:

py -m pip install scanpy==1.3.5

Unix/macOs:

pip install scanpy==1.3.5

scanpy 1.3.42018-11-26T00:00:13Windows:

py -m pip install scanpy==1.3.4

Unix/macOs:

pip install scanpy==1.3.4

scanpy 1.3.32018-11-05T02:48:03Windows:

py -m pip install scanpy==1.3.3

Unix/macOs:

pip install scanpy==1.3.3

scanpy 1.3.22018-10-05T21:43:33Windows:

py -m pip install scanpy==1.3.2

Unix/macOs:

pip install scanpy==1.3.2

scanpy 1.3.12018-09-03T12:57:51Windows:

py -m pip install scanpy==1.3.1

Unix/macOs:

pip install scanpy==1.3.1

scanpy 1.32018-09-03T11:49:38Windows:

py -m pip install scanpy==1.3

Unix/macOs:

pip install scanpy==1.3

scanpy 1.2.22018-06-08T21:03:11Windows:

py -m pip install scanpy==1.2.2

Unix/macOs:

pip install scanpy==1.2.2

scanpy 1.2.12018-06-08T07:38:13Windows:

py -m pip install scanpy==1.2.1

Unix/macOs:

pip install scanpy==1.2.1

scanpy 1.2.02018-06-08T01:47:44Windows:

py -m pip install scanpy==1.2.0

Unix/macOs:

pip install scanpy==1.2.0

scanpy 1.12018-06-01T02:10:06Windows:

py -m pip install scanpy==1.1

Unix/macOs:

pip install scanpy==1.1

scanpy 1.0.42018-04-16T20:29:12Windows:

py -m pip install scanpy==1.0.4

Unix/macOs:

pip install scanpy==1.0.4

scanpy 1.0.3.post12018-04-16T17:45:48Windows:

py -m pip install scanpy==1.0.3.post1

Unix/macOs:

pip install scanpy==1.0.3.post1

scanpy 1.0.32018-04-11T20:52:25Windows:

py -m pip install scanpy==1.0.3

Unix/macOs:

pip install scanpy==1.0.3

scanpy 1.0.22018-04-08T22:30:43Windows:

py -m pip install scanpy==1.0.2

Unix/macOs:

pip install scanpy==1.0.2

scanpy 1.0.1.post12018-04-16T19:00:07Windows:

py -m pip install scanpy==1.0.1.post1

Unix/macOs:

pip install scanpy==1.0.1.post1

scanpy 1.0.12018-04-03T08:39:40Windows:

py -m pip install scanpy==1.0.1

Unix/macOs:

pip install scanpy==1.0.1

scanpy 1.02018-03-29T23:09:35Windows:

py -m pip install scanpy==1.0

Unix/macOs:

pip install scanpy==1.0

scanpy 0.4.42018-02-26T11:03:13Windows:

py -m pip install scanpy==0.4.4

Unix/macOs:

pip install scanpy==0.4.4

scanpy 0.4.32018-02-09T13:06:55Windows:

py -m pip install scanpy==0.4.3

Unix/macOs:

pip install scanpy==0.4.3

scanpy 0.4.22018-01-07T19:45:39Windows:

py -m pip install scanpy==0.4.2

Unix/macOs:

pip install scanpy==0.4.2

scanpy 0.4.12018-01-01T22:53:43Windows:

py -m pip install scanpy==0.4.1

Unix/macOs:

pip install scanpy==0.4.1

scanpy 0.42017-12-24T05:41:37Windows:

py -m pip install scanpy==0.4

Unix/macOs:

pip install scanpy==0.4

scanpy 0.3.22017-11-29T22:19:03Windows:

py -m pip install scanpy==0.3.2

Unix/macOs:

pip install scanpy==0.3.2

scanpy 0.3.12017-11-17T15:51:49Windows:

py -m pip install scanpy==0.3.1

Unix/macOs:

pip install scanpy==0.3.1

scanpy 0.32017-11-17T01:18:10Windows:

py -m pip install scanpy==0.3

Unix/macOs:

pip install scanpy==0.3

scanpy 0.2.9.12017-11-07T10:30:42Windows:

py -m pip install scanpy==0.2.9.1

Unix/macOs:

pip install scanpy==0.2.9.1

scanpy 0.2.92017-10-25T12:48:13Windows:

py -m pip install scanpy==0.2.9

Unix/macOs:

pip install scanpy==0.2.9

scanpy 0.2.82017-08-25T06:39:18Windows:

py -m pip install scanpy==0.2.8

Unix/macOs:

pip install scanpy==0.2.8

scanpy 0.2.72017-08-23T15:35:08Windows:

py -m pip install scanpy==0.2.7

Unix/macOs:

pip install scanpy==0.2.7

scanpy 0.2.62017-08-04T10:31:34Windows:

py -m pip install scanpy==0.2.6

Unix/macOs:

pip install scanpy==0.2.6

scanpy 0.2.52017-07-31T23:55:16Windows:

py -m pip install scanpy==0.2.5

Unix/macOs:

pip install scanpy==0.2.5

scanpy 0.2.42017-07-27T14:28:26Windows:

py -m pip install scanpy==0.2.4

Unix/macOs:

pip install scanpy==0.2.4

scanpy 0.2.3.52017-07-25T16:03:53Windows:

py -m pip install scanpy==0.2.3.5

Unix/macOs:

pip install scanpy==0.2.3.5

scanpy 0.2.3.42017-07-25T15:49:56Windows:

py -m pip install scanpy==0.2.3.4

Unix/macOs:

pip install scanpy==0.2.3.4

scanpy 0.2.32017-07-24T15:03:55Windows:

py -m pip install scanpy==0.2.3

Unix/macOs:

pip install scanpy==0.2.3

scanpy 0.2.12017-07-24T09:29:35Windows:

py -m pip install scanpy==0.2.1

Unix/macOs:

pip install scanpy==0.2.1

Step 4: Otherwise, you can install scanpy from local archives:

Download the distribution file from scanpy-1.9.1.tar.gz or the specific scanpy version in the below list of distribution

After that, install by command:

On Windows(CMD):

py -m pip install <path_to_scanpy_downloaded_file>

On Unix/macOs:

pip install <path_to_scanpy_downloaded_file>

List distribution:

Project link:

- Documentation
- Home-page
- Source

 

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