Welcome to danRerLib’s Documentation

Introduction

Welcome to danRerLib’s Documentation page! danRerLib, short for Danio rerio library, is a comprehensive toolkit designed specifically for zebrafish researchers, focusing on genomics and transcriptomics.

Getting Started

New to danRerLib? Start with our Introduction page to learn about the toolkit’s features.

User’s Guide

Explore the user’s guide to discover how to make the most of danRerLib:

  • Installation: Step-by-step instructions on how to install the toolkit.

  • Usage Principles: Learn the core principles and best practices for using danRerLib effectively.

API Reference

For detailed information on danRerLib’s APIs and modules, check out our API reference:

  • API Reference Home: Explore the Python API reference documentation for full functionality.

Tutorials

Learn by doing with our hands-on tutorials:

Developer Guide

If you’re interested in contributing or want to learn more about the toolkit’s development:

  • Changelog: Stay up-to-date with the latest changes and updates.

  • Contributing: Join our community and contribute to danRerLib’s development.

  • Code of Conduct: Familiarize yourself with our code of conduct.

  • License: license.

Publication Information

danRerLib has been published in Bioinformatics Advances under the title danRerLib: a python package for zebrafish transcriptomics. The full publication can be found here.

Citation

Ashley V Schwartz, Karilyn E Sant, Uduak Z George, danRerLib: a python package for zebrafish transcriptomics, Bioinformatics Advances, 2024;, vbae065, https://doi.org/10.1093/bioadv/vbae065.

Development

danRerLib has been developed by the SDSU Computational Toxicology Laboratory with primary Python code contributions from Ashley Schwartz. Karilyn E. Sant and Uduak Z. George conceived the study.

Funding

This work was supported by a National Institute of Health (National Institute of Diabetes and Digestive and Kidney Diseases) award [1R21DK134931-01 to U.Z.G and K.E.S]. Support for K.E.S. was also provided by the National Institute of Environmental Health Sciences [K01ES031640]. Support for U.Z.G was also provided by a National Science Foundation CAREER award [DMS2240155]. A.V.S. acknowledges support from the San Diego Achievement Rewards for College Scientists Foundation and the College of Sciences at San Diego State University.

Disclaimer

“Any opinions, findings, and conclusions or recommendations expressed in this material are those of the authors and do not necessarily reflect the views of the funding organizations.”