Skyline 3.1 introduces the ability to query raw data files stored in the Chorus raw data repository for chromatograms and spectra. Hopefully we will have a more detailed tutorial on this soon, but in the meantime you can download and watch this video comparison of extracting chromatograms from raw DIA on a local hard-drive and the same data on Chorus.
You can also consult the slides from Brendan's ASMS 2014 presentation:
Start a project on Chorus and upload your full-scan (DIA, PRM or DDA) data to get started today.
NOTE: Remote chromatogram access not yet supported for SRM data or MSX data.
NOTE: We are currently working on supporting Agilent and Waters full-scan IMS data.