DAVIDpy

Python3 extension for DAVID Bioinformatics Tool

! Current version supports only Chart Reports !

DAVIDpy is based on DAVID Web Service so it has the same restrictions (max. 200 jobs in a day).

Installation

You can install DAVIDpy from PyPI using pip:

pip3 install DAVIDpy

Also you should register HERE before using this tool.

Usage

Command-line tool

Easy and fast way to run DAVID analysis.

You should use it if:

• You want just to save a result (.tsv or .csv).
• You need a fast way to have a look on result right in the command line.

To perform analysis, run:

davidpy -i <genes>

where <genes> is a genes list or a text file with genes.

Some optional arguments: --tsv and --csv - save result at working directory. --full - show more columns.

Python package

More flexible way to run DAVID analysis.
It allows to work with results as a Pandas DataFrame object.

Common way to perform analysis:

import davidpy
client = davidpy.DAVID_start(input_list)
df = davidpy.get_chart(client)

If you need, you can use client object to do more complex requests, using WSDL operations listed here. For example:

import davidpy
client = davidpy.DAVID_start(input_list)
client.service.getListReport()