You can select scan filters to specify the process that the application applies to a subset of the scans in a raw data file. Use only the fields that apply to your mass spectrometer. In the Chromatogram view (see Modify Chromatogram view), you can define additional scan filters by adhering to the following scan filter formats.
NOTE
Not all features are available for every mass spectrometer.
The following table lists the scan filter formats.
Feature | Option | Interpretation |
|---|---|---|
Polarity | +, – | Positive or negative. |
Data type | p, c | Profile or centroid. |
Dependent scans | d, !d | Include dependent scans or exclude dependent scans. |
TurboScans | t, !t | Include TurboScan scans or exclude TurboScan scans. |
Source CID | cid, !cid | Include Source CID scans or exclude Source CID scans. (Source CID scans are scans for ions that are produced by collision-induced dissociation in the ion source.) |
Scan type | FULL | Full scan |
Z | ZoomScan | |
SIM | Selected ion monitoring | |
SRM | Selected reaction monitoring | |
CRM | Consecutive reaction monitoring | |
Q1MS | Q1 quadrupole analysis | |
Q3MS | Q3 quadrupole analysis | |
Scan mode | ms, ms2, ms3, ... ms10 | MSn , where n = 1 to 10 Each order can be followed by the appropriate number of parent ions. The parent ions can also be omitted. Example: “ms3 345.3, 253.2” indicates an MS3 scan with parent ions whose m/z values are 345.3 and 253.2. |
pr | Parent ion (followed by the product ion mass) | |
cng | Constant neutral gain (followed by the mass that is being gained) | |
cnl | Constant neutral loss (followed by the mass being lost) | |
Mass Analyzer | ITMS | Ion trap |
SQMS | Single-quadrupole | |
TQMS | Triple-quadrupole | |
FTMS | Fourier transform | |
Sector | Magnetic sector mass spectrometry | |
Photo Ionization | pi, !pi | Include photo ionization scans or exclude photo ionization scans. |
Compensation Voltage | cv, !cv | Include compensation voltage scans or exclude compensation voltage scans. |
Detector Valid | det, !det | Include detector valid scans or exclude detector valid scans. |
Enhanced | E, !E | Include enhanced scans or exclude enhanced scans. |
Wideband | w, !w | Include wideband scans or exclude wideband scans. |
Supplemental Activation | sa, !sa | Include supplemental activation scans or exclude supplemental activation scans. |
Multistate Activation | msa, !msa | Include multistate activation scans or exclude multistate activation scans. |
Product masses or mass range of scan | [m1a–m1b, m2a–m2b, m3a–m3b, ...] | Scans with a specific mass range or mass ranges. Example: "[50.00–1500.00]" represents a scan from an m/z of 50.00 to an m/z of 1500.00 If a scan is exactly 1 Da wide, it appears as a single value (the center mass). This is typical for SIM, SRM, and CRM. Filters for precursor ions in dependent scans are matched with a tolerance that is equal to an m/z of 1.0; this is so that so that minor differences in precursor mass measurements from scan to scan do not give different filters. |
Segment/scan event number pairs | {segment, scan number} | Example: “{3, 4} + c ms” indicates segment 3, scan event 4 for a positive centroid MS scan The braces, { }, are required. |
Ionization mode | APCI | Atmospheric pressure chemical ionization |
ESI | Electrospray Example: “+ c ESI ms” indicates a positive centroid electrospray MS scan. | |
EI | Electron ionization | |
CI | Chemical ionization | |
NSI | Nanoelectrospray ionization | |
FAB | Fast atom bombardment | |
TSP | Thermospray ionization | |
FD | Field desorption | |
MALDI | Matrix-assisted laser desorption ionization | |
GD | Glow discharge | |
PSI | Paper spray ionization | |
Corona on/off | corona, !corona | Corona on or corona off. Example: “+ APCI !corona ms” indicates a positive centroid APCI scan with the corona off. |
Detector value | “det=##.##” | Detector value is ##.## with no spaces. Example: “+ ESI det= –800.0” indicates a positive electrospray scan at –800.0 detector units (usually volts). |
MS/MS and MSn CID energies | mass@energy | Mass is the precursor mass and energy is the CID relative energy (no units). Example: “– c ms2 196.1@25.0” indicates a negative centroid MS/MS scan of m/z 196.1 at 25.0 units of CID energy. |
Fragmentation/ disassociation technique | UVPD | Ultra violet photo dissociation |
Quadrupole identification | Q1MS, Q3MS | Q1 quadrupole or Q3 quadrupole. Example: “+ c ESI Q3MS” indicates a positive centroid electrospray MS scan using a Q3 quadrupole. |
Accurate mass | AM, !AM | Include accurate mass scans, exclude accurate mass scans. |
AMI, AME | Include accurate mass internal, or include accurate mass external. | |
Ultra | u, !u | Include ultra scans or exclude ultra scans. |
Sector | BSCAN, !BSCAN | Include magnetic sector scans or exclude magnetic sector scans. |
ESCAN, !ESCAN | Include electric sector scans or exclude electric sector scans. | |
LOCK | lock, !lock | Include lock scans or exclude lock scans. |
Multiplex | msx, !msx | Include multiplexing scans or exclude multiplexing scans. |
Electron capture dissociation | ecd, !ecd | Include electron capture dissociation or exclude electron capture dissociation. |
Multi-photon dissociation | mpd, !mpd | Include photo dissociation or exclude photo dissociation. |
Pulsed dissociation | pqd, !pqd | Include pulsed dissociation scans or exclude pulsed dissociation scans. |
Electron transfer dissociation | etd, !etd | Include electron transfer dissociation scans or exclude electron transfer dissociation scans. |
NPTR | nptr, !nptr | Include NPTR, or exclude NPTR. |
Higher-energy CID | hcd, !hcd | Include higher energy CID scans or exclude higher energy CID scans. |
Source SID | sid, !sid | Include source SID scans or exclude source SID scans. (Source SID scans are surface-induced scans.) |
Isolation width | iw ##, ## | Isolation width value at ##, ##. |