saintBioutils

Repository containing utility and miscellaneous scripts and functions for use in bioinformatic pipelines, primarily written in Python3.

The name is derived from the primary host organisation (University of St Andrews) when the repo was firsted established.

Table of contents

• Installation
• Directories
• Copyright and License

Installation

Quick and Easy

The easiest way to install saintBioutils and include the (sub)modules and functions is to install the package via pip, using the following command:

pip3 install saintBioutils

This ensures all dependencies are installed

From Source

To install from source, clone the repository:

git clone https://github.com/HobnobMancer/saintBioutils.git

Then install the package, which ensures all dependencies are also installed:

python3 <path to the setup.py file>

Directories

• genbank - Scripts for downloading and parsing genomic assemblies from NCBI GenBank
• uniprot - Scripts and functions related to calling to, retrieving from and parsing data from UniProt and its API
• utilities - Script and functions for utility functions for script/program utility operations

Copyright and License

MIT License

Copyright (c) 2020-2021 University of St Andrews
Copyright (c) 2020-2021 University of Strathclyde
Copyright (c) 2020-2021 UJames Hutton Institute