bittremieux
commented
6 years ago Interesting and highly relevant topic!
Open veitveit opened 7 years ago
bittremieux
commented
6 years ago Interesting and highly relevant topic!
Abstract
Proteomics is a broad research field embracing a wide range of alternative experimental and computational approaches. This led to the development of a zoo of single- and multi-purpose software tools where documentation of tool usage and applicable pipelines are either scattered over the respective web sites or not available. This project aims at creating a set of protocols that describe how well defined problems can be solved using a given software. More specifically, we aim to provide user-friendly and immediately applicable protocols for the principal computational tasks in proteomics research. Additionally, we will work on creating software containers that allow performing the tasks in a controlled environment. The resulting documented workflow containers will be made available in a central repository and published in a well-defined format. The format will establish the layout for future protocol submissions. Herein, we want to promote interactive solutions, interlinking with user support platforms and common training platforms such as proteomics-academy.org and ELIXIR TeSS.
Ultimately, we aim to collect material for publication in a dedicated issue, e.g. in Journal of Proteomics.
Work plan
Benefits Individual: Dissemination of your work or your favorite workflows Community: Lower the bar for using proteomics software
Technical details
Software developers and data analysts with experience in setting up workflows are very welcome.
Experience in html, javascript/php and setup of software containers will be of advantage
Contact information
Johannes Griss Department of Medicine I, Medical University of Vienna, Vienna, Austria johannes.griss@meduniwien.ac.at
Veit Schwämmle Department of Biochemistry and Molecular Biology University of Southern Denmark Denmark veits@bmb.sdu.dk