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https://github.com/koonimaru/omniplot
Statistical analysis, clustering and visualinzing scientific data with hassle free
https://github.com/koonimaru/omniplot
data-science matplotlib numpy pandas python
Last synced: 3 months ago
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Statistical analysis, clustering and visualinzing scientific data with hassle free
- Host: GitHub
- URL: https://github.com/koonimaru/omniplot
- Owner: koonimaru
- License: apache-2.0
- Created: 2022-12-14T07:41:34.000Z (about 2 years ago)
- Default Branch: main
- Last Pushed: 2024-11-10T00:17:07.000Z (3 months ago)
- Last Synced: 2024-11-15T01:43:09.499Z (3 months ago)
- Topics: data-science, matplotlib, numpy, pandas, python
- Language: Jupyter Notebook
- Homepage:
- Size: 41.6 MB
- Stars: 22
- Watchers: 2
- Forks: 2
- Open Issues: 1
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
[](https://pypi.org/project/omniplot/)
![omniplot logo][logo-image]
## What is omniplot
omniplot is a python module to draw a scientific plot with hassle free. It mainly focuses on bioinfomatics data.
## Motivation
Although there exist many good python data visualization libraries, such as
[matplotlib](https://matplotlib.org/),
[pandas](https://pandas.pydata.org/),
[seaborn](https://seaborn.pydata.org/),
[plotly](https://plotly.com/),
[vedo](https://vedo.embl.es/) and so on,
still several kinds of plots cannot be drawn without hassle. This module is aimed to provide convenient
tools that allow users to draw complex plots, such as a scatter plot with PCA and loadings or clustering analysis in one liner.
## Install
omniplot best works with python3.8. But, greater python versions may be OK. Please try installation with conda, if something wrong with pip installation.
```bash
pip install cython --user
git clone https://github.com/koonimaru/omniplot.git --user
cd omniplot
pip install .
```
or
```bash
pip install cython --user
pip install git+https://github.com/koonimaru/omniplot.git --user
```
or
```bash
git clone https://github.com/koonimaru/omniplot.git
cd omniplot
conda env create -f environment.yml python=3.8
conda activate omniplot
conda install ipykernel
ipython kernel install --user --name=omniplot
conda deactivate
```
And [this](https://ipython.readthedocs.io/en/stable/install/kernel_install.html#kernels-for-different-environments) is how to use conda environment in jupyerlab.
Known issues:
If you get errors saying "error: invalid command 'bdist_wheel'", please try pip install --upgrade pip wheel setuptools
## How to use
I created jupyter notebooks to demonstrate the usage of omniplot [Link](https://github.com/koonimaru/omniplot/tree/main/ipynb).
You can open jupyter notebooks with [jupyter lab](https://jupyterlab.readthedocs.io/en/stable/) or [VScode](https://code.visualstudio.com/).
And, I also write articles in [medium](https://medium.com/@koh.onimaru).
A formal documation is under development, but you may want to visit an auto-generated [API](https://koonimaru.github.io/omniplot/).
## Example usage
```python
import pandas as pd
from omniplot import plot as op
import seaborn as sns
import matplotlib.pyplot as plt
df=sns.load_dataset("titanic")
df=df[["class","embark_town","sex"]].fillna("NA")
op.nested_piechart(df, category=["class","embark_town","sex"], title="Titanic", ignore=0.01, show_legend=True,show_values=False,hatch=True,ncols=3)
plt.show()
```
## Example usage
```python
import seaborn as sns
from omniplot import plot as op
import matplotlib.pyplot as plt
df=sns.load_dataset("penguins")
df=df.dropna(axis=0)
res=op.radialtree(df, category=["species","island","sex"])
plt.show()
```
[logo-image]: images/logo.png