PerturbationX
PerturbationX is a package for analyzing causal networks in combination with gene expression data. It is based on the TopoNPA algorithm. It was developed as part of a Master's thesis at the University of Ljubljana, Faculty of Computer and Information Science and in collaboration with the National Institute of Biology.
Installation
The package can be installed from PyPI or directly from GitHub. It requires a Python version of 3.10 or newer. It is based on NetworkX and pandas and requires Cytoscape for visualization. The latter can be downloaded from here.
python -m pip install perturbationx # PyPI
python -m pip install git+https://github.com/mikethenut/perturbationx # GitHub
Usage
An example Jupyter notebook example.ipynb is available for step-by-step instructions on how to use the package. For advanced usage, refer to the documentation and Master's thesis.
1 maintainer
Metadata
1 maintainer
Release files for perturbationx 1.0.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| perturbationx-1.0.1.tar.gz | 49.4 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| perturbationx-1.0.1-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 116.6 kB
Release files / perturbationx-1.0.1.tar.gz
| Download URL | perturbationx-1.0.1.tar.gz |
|---|---|
| Size | 49.4 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
f8a025141784d7286216d31c3cad46aecc64da3593393bc67e4c57c0fdd7269b
|
|
BLAKE2b-256 checksum How to use checksums |
086e98ce5fa6f11d2490767061b0b56fdf2493f5845ab5ccbbfba3028385817c
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.10.0
|
Release files / perturbationx-1.0.1-py3-none-any.whl
| Download URL | perturbationx-1.0.1-py3-none-any.whl |
|---|---|
| Size | 67.2 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
4a8b4d188a188a091f67177f90e9ff5c36d7068765ca071bdcd919ccf54aefde
|
|
BLAKE2b-256 checksum How to use checksums |
a0ad7c0f2e36b1ae2ae64a287dc72d4c85cf54e18be4e36deb39904d4681086e
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.10.0
|
