ERgene

This is a python library to Find Candidate reference gene

In new Version 1.2.0, the computing speed is increased by a factor of 100

Where to get it

Binary installers for the latest released version are available at the pypi

#PyPI
pip install ERgene

Dependencies

Numpy
time
pandas
itertools
upsetplot

See the full installation instructions for minimum supported versions of required, recommended and optional dependencies

Example

How to Find reference genes

input

import ERgene
import pandas as pd
data=pd.read_csv('gse.txt',sep='\t')#GSE125792
data=data.set_index(data.columns[0])#This is Ver1.2
ERgene.FindERG(data,3)

output

calculate time:17.3s
['ASHGV40057862', 'ASHGV40057056', 'ASHGV40025887', 'ASHGV40056316', 'ASHGV40056377', 'ASHGV40057617', 'ASHGV40057263']

if you use jupyter notebook, there is an Upsetplot will be generated.

How to normalizationdata

You only need to input the gene to normalizate.

However, the literature has proved that single gene standardization is not desirable, so this method should be used with Caution!!!