PDAUG - a Galaxy based toolset for peptide library analysis, visualization, and machine learning modeling.

Overview

Peptide Design and Analysis Under Galaxy (PDAUG) package, a Galaxy based python powered collection of tools, workflows, and datasets for a rapid in-silico peptide library analysis. PDAUG offers tools for peptide library generation, data visualization, in-built and public database based peptide sequence retrieval, peptide feature calculation, and machine learning modeling. PDAUG tool suite can be downloaded and install through galaxy toolshed as a standard galaxy tool.

Galaxy Tutorials: Check our Galaxy tutorials for more details

Peptide Library Data Analysis

ML Modeling Of Anti-Cancer Peptides

Prebuild Docker Image

A prebuild build docker image based on the recent galaxy release can be obtained by the link below for a quick installation.

• Command to run PDAUG-Galaxy server on docker

  docker run -i -t -p 8080:80 jayadevjoshi12/galaxy_pdaug:latest

• Server is accessible at

  http://127.0.0.1:8080

• Galaxy's default user login details

  user id: admin passowrd: password

For more details about the latest docker image, check the bellow link...

 - Docker Image

Note: To install docker on the windows machine, run the installer as an administrator by right-clicking on the installer icon.

Contributors

 - Jayadev Joshi

 - Daniel Blankenberg

History

 - 0.1.0: First release!

Support & Bug Reports

You can file an github issue. 

Citation: Don't forget to cite our work if your find this toolset useful for your research.

Joshi, J., & Blankenberg, D. (2022). PDAUG: A Galaxy based toolset for peptide library analysis, visualization, and machine learning modeling. BMC Bioinformatics, 23(1). https://doi.org/10.1186/s12859-022-04727-6