A mass spectrometer comprising: an ion source; a radio frequency ion trap; a fragmentation cell; a mass analyzer; and a controller configured to: identify a plurality of precursors for analysis; group the precursors into two or more groups, such that the precursors within a group conform to at least the following criteria: a) masses of ions of the precursors in the group are within a first mass range; b) masses of product ions of the precursors in the group are within a second mass range; c) the number of precursors within the group is below a maximum allowable number of precursors; and d) each precursor within the group has at least one unique product ion that differs from the product ions of all the other precursors within the group; generate ions from a sample using the ion source; isolate precursor ions of a group using a multi-notch isolation waveform applied to the radio frequency ion trap; fragment the ions of the group by subjecting the ions within the fragmentation cell to a fragmentation energy; determine the mass-to-charge ratio of the fragment ions; repeat the isolate, fragment, and determine steps for additional groups; identify or quantify the presence of one or more precursors within the sample based on the presence of fragmented ions having a mass-to-charge ratio corresponding to the unique product ion for the precursor. an ion source; a radio frequency ion trap; a fragmentation cell; a mass analyzer; and a controller configured to: identify a plurality of precursors for analysis; group the precursors into two or more groups, such that the precursors within a group conform to at least the following criteria: a) masses of ions of the precursors in the group are within a first mass range; b) masses of product ions of the precursors in the group are within a second mass range; c) the number of precursors within the group is below a maximum allowable number of precursors; and d) each precursor within the group has at least one unique product ion that differs from the product ions of all the other precursors within the group; generate ions from a sample using the ion source; isolate precursor ions of a group using a multi-notch isolation waveform applied to the radio frequency ion trap; fragment the ions of the group by subjecting the ions within the fragmentation cell to a fragmentation energy; determine the mass-to-charge ratio of the fragment ions; repeat the isolate, fragment, and determine steps for additional groups; identify or quantify the presence of one or more precursors within the sample based on the presence of fragmented ions having a mass-to-charge ratio corresponding to the unique product ion for the precursor. identify a plurality of precursors for analysis; group the precursors into two or more groups, such that the precursors within a group conform to at least the following criteria: a) masses of ions of the precursors in the group are within a first mass range; b) masses of product ions of the precursors in the group are within a second mass range; c) the number of precursors within the group is below a maximum allowable number of precursors; and d) each precursor within the group has at least one unique product ion that differs from the product ions of all the other precursors within the group; a) masses of ions of the precursors in the group are within a first mass range; b) masses of product ions of the precursors in the group are within a second mass range; c) the number of precursors within the group is below a maximum allowable number of precursors; and d) each precursor within the group has at least one unique product ion that differs from the product ions of all the other precursors within the group; generate ions from a sample using the ion source; isolate precursor ions of a group using a multi-notch isolation waveform applied to the radio frequency ion trap; fragment the ions of the group by subjecting the ions within the fragmentation cell to a fragmentation energy; determine the mass-to-charge ratio of the fragment ions; repeat the isolate, fragment, and determine steps for additional groups; identify or quantify the presence of one or more precursors within the sample based on the presence of fragmented ions having a mass-to-charge ratio corresponding to the unique product ion for the precursor.