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https://www.proteomesoftware.com/
We offer DDA and DIA proteomics and small molecule mass spectrometry software solutions for handling large-scale, data-rich, biological identification and quantitative experiments. After using Scaffold for several months now, I have to say that I have been very impressed with its ease of use, robust features, and stability.
https://www.proteomesoftware.com/about
About us. Founded by Mark Turner, Brian Searle, and Ashley McCormack, Proteome Software is a scientist-operated small business located in Portland, Oregon, USA. We provide the MS/MS analytics community with an intuitive group of proteomics, metabolomics, and small molecule mass spectrometry tools. Our team of developers, scientists, and ...
http://www.proteomesoftware.com/products
Proteome Software offers a variety of proteomics, metabolomics, and small molecule mass spectrometry software solutions for handling large-scale, data-rich biological identification or quantitative experiments. We innovate on the leading edge of MS/MS analytics, and our software tools are used in hundreds of laboratories and universities around ...
https://support.proteomesoftware.com/hc/en-us/articles/360046759191-DIA-Proteomics-Workflows-Choosing-the-Right-Library
If you assume 2 hour gradients for each run, then processing 6 GPF library samples and 10 single injection experimental samples will take about 32 hours. If you were to run two injections of each sample and search a Prosit library directly, you would spend at least 40 hours processing this same set of samples.
https://support.proteomesoftware.com/hc/en-us
Scaffold Software Supported Data Formats. Loading PEAKS Data into Scaffold. Configuring Proteome Discoverer 2.2 and forward for Compatibility with Scaffold. Configuring Proteome Discoverer 2.0-2.1 for Compatibility with Scaffold. Loading MaxQuant Results into Scaffold Products. Configuring Proteome Discoverer. See all 7 articles.
https://www.proteomesoftware.com/testimonials
Testimonials. Our lab's relationship with Proteome Software has been most rewarding, and Scaffold has become an integral part of our workflow. Arthur Moseley, Duke University School of Medicine. As a core lab, one of our missions is to educate and empower end users: Scaffold is ideal for this purpose. Scaffold presents results in an intuitive ...
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