I just wanted to thank the readers here, both the OneOmics suite users who’ve shared their time and watched OneOmics grow, and for all the talented developers and scientists who’ve made OneOmics suite what it is today.
Uploading data for use in OneOmics suite
There are two options for data storage when working with the OneOmics suite. You can store your data either within the SCIEX Cloud platform in the Data Store, or you can store data in BaseSpace (Illumina) and link your BaseSpace account with the SCIEX Cloud platform....
Visualizing SWATH acquisition results in CloudConnect
CloudConnect in PeakView software 2.2 enables both the upload of data files to the OneOmics suite as well as the download of SWATH acquisition results files for viewing. This post will describe how to download and visualize the results from Extractor processing, so...
Getting access to demo data and other files for learning the OneOmics suite
In order to help you get proficient in using the OneOmics suite workflows, we have provided some demo datasets along with numerous other valuable files and supporting information to help you get started. Once you get access to your SCIEX Cloud account and can view...
How does the scoring and FDR analysis work for SWATH acquisition data processing? For proteomics
Similar extraction processes are used in both the SWATH acquisition microapp in PeakView software on the desktop and the Extractor app in OneOmics suite. After the fragment ions have been selected for each peptide, the extracted ion chromatograms are generated and the...
How are peptides and transitions selected for use in quantification, when importing from a ProteinPilot software group file – using SWATH acquisition microapp or Extractor in OneOmics suite?
Similar selection processes are used in both the SWATH acquisition microapp in PeakView software on the desktop and the Extractor app in OneOmics suite. During the protein grouping process in ProteinPilot software, there is an extensive analysis that is done on the...
What software do I need to process my SWATH acquisition data using the desktop or cloud solutions?
Desktop solution: If you are processing your SWATH acquisition data using the SCIEX pipeline, there are a 3 software packages that work together seamlessly for processing. First, you would process your IDA data using ProteinPilot software to create an ion library. ...
What is SWATH acquisition and what are the critical acquisition attributes?
In data-independent acquisition strategies like SWATH acquisition, an expanded mass isolation window is stepped across a mass range covering the mass-to-charge (m/z) distribution of peptides and a full scan MS/MS spectrum is collected at each step. Post-acquisition,...
How to download and use SVG files from OneOmics suite
Results workspaces in the OneOmics suite contain a variety of figures, all available for download as SVG (scalable vector graphic) files. To download your figures, select the orange arrow icon located in the upper right-hand corner of each plot. Download will...
How to share your results with collaborators
As multi-omics research is often highly collaborative, tools for rapidly sharing important results files are needed to drive scientific progress. The SCIEX Data Store in the OneOmics suite enables you to not only organize your uploaded multi-omics data files into...