Table 2. Summary of the Pros and Cons for the DIA-MS Data Analysis Approaches Evaluated (+: Least Advantageous, ++: Moderately Advantageous, +++: the Most Advantageous).

approach	sample processing time	computational runtime	depth of detection	data consistency
cohort library (lib-IS, lib-EPS)	+	+++	+++	+++
subset cohort library	++	+++	++	++
pooled sample library (lib-GPF, lib-HighpH)	++	+++	+	+++
library-free	+++	+	++	+++
publicly available resource library (DPHLv2)	+++	++	+++	+