. Author manuscript; available in PMC: 2019 Jan 9.

Published in final edited form as: Mass Spectrom Rev. 2017 Jul 9:10.1002/mas.21540. doi: 10.1002/mas.21540

Table 1. Proprietary file formats supported by Skyline.

Vendors and instruments supported by the Skyline ecosystem are specified along with their respective proprietary file format and general acquisition types. (QqQ: triple quadrupole; Q-TOF: quadrupole time of flight; IMS-TOF: ion mobility spectrometry-time of flight; Q-OT: quadrupole-Orbitrap; Q-LIT: quadrupole-linear ion trap)

Vendor	File extension	Instruments Supported	Acquisitions Supported
Agilent	.d (directory)	QqQ, Q-TOF, IMS-TOF	DDA, SRM, DIA
Bruker	.d (directory)	Q-TOF	DDA, PRM, DIA
Sciex	.wiff (file)	QqQ, Q-TOF	DDA, SRM, PRM, DIA
Shimadzu	.qgd	QqQ	SRM
Thermo	.raw (file)	QqQ, Q-OT, Q-LIT	DDA, SRM, PRM, DIA
Waters	.raw (directory)	QqQ, Q-TOF, IMS-TOF	SRM, PRM, DIA