A framework for installable external tools in Skyline.

Bioinformatics
Authors
Keywords
Abstract

UNLABELLED: Skyline is a Windows client application for targeted proteomics method creation and quantitative data analysis. The Skyline document model contains extensive mass spectrometry data from targeted proteomics experiments performed using selected reaction monitoring, parallel reaction monitoring and data-independent and data-dependent acquisition methods. Researchers have developed software tools that perform statistical analysis of the experimental data contained within Skyline documents. The new external tools framework allows researchers to integrate their tools into Skyline without modifying the Skyline codebase. Installed tools provide point-and-click access to downstream statistical analysis of data processed in Skyline. The framework also specifies a uniform interface to format tools for installation into Skyline. Tool developers can now easily share their tools with proteomics researchers using Skyline.

AVAILABILITY AND IMPLEMENTATION: Skyline is available as a single-click self-updating web installation at http://skyline.maccosslab.org. This Web site also provides access to installable external tools and documentation.

SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Year of Publication
2014
Journal
Bioinformatics
Volume
30
Issue
17
Pages
2521-3
Date Published
2014 Sep 01
ISSN
1367-4811
URL
DOI
10.1093/bioinformatics/btu148
PubMed ID
24813211
PubMed Central ID
PMC4147880
Links
Grant list
R01 GM103551 / GM / NIGMS NIH HHS / United States
UL1 TR001108 / TR / NCATS NIH HHS / United States