| Port details |
- py-pydeseq2 Python implementation of the popular DESeq2 R package
- 0.5.2 biology
 =0      Package not present on quarterly.This port was created during this quarter. It will be in the next quarterly branch but not the current one. - Maintainer: jwb@FreeBSD.org
- Port Added: 2025-06-11 14:27:03
- Last Update: 2025-06-28 11:45:57
- Commit Hash: 538a871
- Also Listed In: python
- License: MIT
- WWW:
- https://github.com/owkin/PyDESeq2
- Description:
- PyDESeq2 is a python implementation of the DESeq2 method for
differential expression analysis (DEA) with bulk RNA-seq data,
originally in R. It aims to facilitate DEA experiments for python
users.
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - There is no configure plist information for this port.
- Dependency lines:
-
- ${PYTHON_PKGNAMEPREFIX}pydeseq2>0:biology/py-pydeseq2@${PY_FLAVOR}
- To install the port:
- cd /usr/ports/biology/py-pydeseq2/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/py-pydeseq2
- pkg install py311-pydeseq2
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
NOTE: This is a Python port. Instead of py311-pydeseq2 listed in the above command, you can pick from the names under the Packages section.- PKGNAME: py311-pydeseq2
- Package flavors (<flavor>: <package>)
- distinfo:
- TIMESTAMP = 1751029007
SHA256 (pydeseq2-0.5.2.tar.gz) = 9a124793f3155e40863f63cb92d73f815d01c6e0b3cc0d8e8730141c134c16f4
SIZE (pydeseq2-0.5.2.tar.gz) = 51377
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- py311-setuptools>=63.1.0 : devel/py-setuptools@py311
- python3.11 : lang/python311
- Test dependencies:
-
- python3.11 : lang/python311
- Runtime dependencies:
-
- py311-anndata>=0.8.0 : devel/py-anndata@py311
- py311-formulaic>=1.0.2 : math/py-formulaic@py311
- py311-formulaic_contrasts>=0.2.0 : math/py-formulaic-contrasts@py311
- py311-matplotlib>=3.6.2 : math/py-matplotlib@py311
- py311-numpy>=1.16,1<1.27,1 : math/py-numpy@py311
- py311-pandas>=1.4.0 : math/py-pandas@py311
- py311-scikit-learn>=1.1.0 : science/py-scikit-learn@py311
- py311-scipy>1.11.0 : science/py-scipy@py311
- python3.11 : lang/python311
- There are no ports dependent upon this port
Configuration Options:- No options to configure
- Options name:
- biology_py-pydeseq2
- USES:
- python
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
Number of commits found: 2
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
0.5.2
28 Jun 2025 11:45:57
 |
Jason W. Bacon (jwb) |
biology/py-pydeseq2: Update to 0.5.2
Minor code cleanup
Changes: https://github.com/owkin/PyDESeq2/releases/tag/v0.5.2
Reported by: portscout |
0.5.1
11 Jun 2025 14:24:15
|
Jason W. Bacon (jwb) |
biology/py-pydeseq2: Python reimplementation of the DESeq2 R package
PyDESeq2 is a python implementation of the DESeq2 method for
differential expression analysis (DEA) with bulk RNA-seq data,
originally in R. It aims to facilitate DEA experiments for python
users. |
Number of commits found: 2
|
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