Description
The script gets as input folder that contains separate file for each sample with 3 columns: gene name, p-value and log2 of fold change. The script filter according p-value (default: <=0.05) and log2 fold change (default: >=1) and create venn-diagram between the groups.
The file names within the input folder should to be:
sample1.csv, sample2.csv … (until 6 groups) or sample1.xlsx, sample2.xlsx …
The files must to include the header line: Atnum,pv,log2FC
You can see example of input and output files here: venn-diagram-exmple
Run command
create-venn.py –input-dir YOUR-INPUT-FOLDER –output-dir YOUR-OUTPUT-DIR
You can see another optional parameters with the command (–min-log-fc, –max-p-value, –total_gene_numbers): create-venn.py –help
Python version
This project is currently using Python 2.7
Installation
It is recommended to use virtualenv to create a clean python environment.
To install venn-diagram, use pip:
pip install bbcu.venn-diagram
Credit
The plot of the venn made by: https://github.com/benfred/venn.js
2 maintainers
Release files for bbcu.vennDiagram 1.0.26
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| bbcu.vennDiagram-1.0.26.tar.gz | 298.7 kB | Details |
Release files / bbcu.vennDiagram-1.0.26.tar.gz
| Download URL | bbcu.vennDiagram-1.0.26.tar.gz |
|---|---|
| Size | 298.7 kB |
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