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A method for processing time-dependent signal data is disclosed. The time-dependent signal data are received in a memory, wherein the time-dependent signal data represent a time-dependent signal, and wherein the time-dependent signal data include representations of time-of-flight values of ions, or

A method for processing time-dependent signal data is disclosed. The time-dependent signal data are received in a memory, wherein the time-dependent signal data represent a time-dependent signal, and wherein the time-dependent signal data include representations of time-of-flight values of ions, or values derived from time-of-flight values of ions. The time-dependent signal data are scaled with a time-dependent scaling function.

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1. A method for digitally processing time-dependent signal data, the method comprising:(a) receiving the time-dependent signal data in memory, wherein the time-dependent signal data represent a time-dependent signal, and wherein the time-dependent signal data include representations of time-of-fligh

1. A method for digitally processing time-dependent signal data, the method comprising:(a) receiving the time-dependent signal data in memory, wherein the time-dependent signal data represent a time-dependent signal, and wherein the time-dependent signal data include representations of time-of-flight values of ions, or values derived from time-of-flight values of ions; and(b) scaling the time-dependent signal data with a time-dependent scaling function. 2. The method of claim 1, wherein the method further comprises, before (a), digitizing the time-dependent signal to produce the time-dependent signal data. 3. The method of claim 1, wherein the method further comprises, before (a), producing the time-dependent signal using a time-of-flight mass spectrometer. 4. The method of claim 1 wherein the time-dependent scaling function is proportional to time. 5. The method of claim 1 wherein the time-dependent scaling function is proportional to the square of time. 6. The method of claim 1 wherein the time-dependent scaling function is proportional to the cube of time. 7. The method of claim 1 wherein the time-dependent scaling function includes a step function. 8. The method of claim 1 wherein the time-dependent scaling function is based on a signal bandwidth. 9. The method of claim 1 wherein the time-dependent signal is produced by a time-of-flight mass spectrometer, and wherein the time-dependent signal data include a set of peaks that are respectively associated with different time-of-flight values, or values derived from time-of-flight values, and wherein the time-dependent scaling function scales the peaks in the set of peaks using expected widths of peaks at the time-of-flight values, or values derived from time-of-flight values. 10. The method of claim 1 wherein the time-dependent signal is produced by a time-of-flight mass spectrometer, and wherein the time-dependent signal data include a set of peaks that are respectively associated with different time-of-flight values, or values derived from time-of-flight values, and wherein the time-dependent scaling function scales the peaks in the set of peaks using measured widths of peaks at the time-of-flight values, or values derived from time-of-flight values. 11. The method of claim 1 wherein the time-dependent signal data is from a time-of-flight mass spectrometer that comprises an ion detector that exhibits decreasing conversion efficiency as a function of increasing mass-to-charge ratio, and wherein the time-dependent scaling function is based on the conversion efficiency. 12. The method of claim 1 wherein the time-dependent signal is produced by a mass spectrometer and the mass spectrometer is a laser desorption/ionization mass spectrometer. 13. The method of claim 1 further comprising determining and subtracting an offset from the time-dependent signal data. 14. The method of claim 1 further comprising determining and subtracting an offset from the time-dependent signal data, and wherein determining and subtracting an offset is performed before (b). 15. The method of claim 1 further comprising digitally filtering the time-dependent signal data with a filter having a time-dependent bandwidth. 16. The method of claim 1 further comprising determining and subtracting an offset from the time-dependent signal data, wherein determining the offset includes analyzing only the time-dependent signal data in the last 50% or less of a time period over which the time-dependent signal is measured. 17. The method of claim 1 further comprising digitally filtering the time-dependent signal data with a filter, wherein coefficients of the filter are based on a Gaussian function. 18. The method of claim 1 further comprising digitally filtering the time-dependent signal data, wherein digitally filtering includes:(i) producing a first subset of filtered data using a first filter having a first bandwidth; and(ii) producing a second subset of filtered data using a second filter having a second bandwid th. 19. A computer readable medium comprising:(a) code for receiving time-dependent signal data in memory, wherein the time-dependent signal data represent a time-dependent signal, and wherein the time-dependent signal data include representations of time-of-flight values of ions, or values derived from time-of-flight values of ions; and(b) code for scaling the time-dependent signal data with a time-dependent scaling function. 20. The computer readable medium of claim 19 wherein the time-dependent scaling function is proportional to time. 21. The computer readable medium of claim 19 wherein the tune-dependent scaling function is proportional to the square of time. 22. The computer readable medium of claim 19 wherein the time-dependent scaling function is proportional to the cube of time. 23. The computer readable medium of claim 19 wherein the time-dependent scaling function includes a step function. 24. The computer readable medium of claim 19 wherein the time-dependent scaling function is based on a signal bandwidth. 25. The computer readable medium of claim 19 wherein the time-dependent signal is produced by a time-of-flight mass spectrometer, and wherein the time-dependent signal data include a set of peaks that are respectively associated with different time-of-flight values, or values derived from time-of-flight values, and wherein the time-dependent scaling function scales the peaks in the set of peaks using expected widths of peaks at the time-of-flight values, or values derived from time-of-flight values. 26. The computer readable medium of claim 19, wherein the time-dependent signal is produced by a time-of-flight mass spectrometer, and wherein the time-dependent signal data include a set of peaks that are respectively associated with different time-of-flight values, or values derived from time-of-flight values, and wherein the time-dependent scaling function scales the peaks in the set of peaks using measured widths of peaks at the time-of-flight values, or values derived from time-of-flight values. 27. The computer readable medium of claim 19 wherein the time-dependent signal is from a time-of-flight mass spectrometer that comprises an ion detector that exhibits decreasing conversion efficiency as a function of increasing mass-to-charge ratio, and wherein the time-dependent scaling function is based on the conversion efficiency. 28. The computer readable medium of claim 19 wherein the time-dependent signal is produced by a mass spectrometer and the mass spectrometer is a laser desorption/ionization mass spectrometer. 29. The computer readable medium of claim 19 further comprising code for determining and subtracting an offset from the time-dependent signal data. 30. The computer readable medium of claim 19 further comprising code for digitally filtering the data with a filter having a time-dependent bandwidth. 31. The computer readable medium of claim 19 further comprising code for determining and code for subtracting an offset from the time-dependent signal data, wherein the code for determining the offset includes code for analyzing only the time-dependent signal data in the last 50% or less of a time period over which the time-dependent signal is measured. 32. The computer readable medium of claim 19 further comprising code for digitally filtering the data with a filter, wherein coefficients of the filter are based on a Gaussian function. 33. The computer readable medium of claim 19 further comprising code for digitally filtering the time-dependent signal data, wherein the code for digitally filtering includes:(i) code for producing a first subset of filtered data using a first filter having a first bandwidth; and(ii) code for producing a second subset of filtered data using a second filter having a second bandwidth. 34. A mass spectrometer system comprising:(a) an ionization source that generates ions;(b) a mass analyzer that receives the ions from the ionization source, and focuses and accelerates the ions usi ng electrostatic fields toward an ion detector;(c) an ion detector with a detecting surface that detects the ions and produces a time-dependent signal;(d) a digital converter adapted to convert the time-dependent signal from the ion detector into time-dependent signal data;(e) a digital computer including a memory, the digital computer configured to process the time-dependent signal data according to the steps of:(i) receiving the time-dependent signal data in the memory, wherein the time-dependent signal includes representations of the time-of-flight values of the ions, or values derived from time-of-flight values of the ions, and(ii) scaling the time-dependent signal data with a time-dependent scaling function. 35. The mass spectrometer system of claim 34 wherein the mass spectrometer system includes a time-of-flight mass spectrometer. 36. The mass spectrometer system of claim 34 wherein the scaling function is proportional to time. 37. The mass spectrometer system of claim 34 wherein the scaling function is proportional to the square of time. 38. The mass spectrometer system of claim 34 wherein the scaling function is proportional to the cube of time. 39. The mass spectrometer system of claim 34 wherein the scaling function increases stepwise in at least one step. 40. The mass spectrometer system of claim 34 wherein the time-dependent scaling function is based on a signal bandwidth. 41. The mass spectrometer system of claim 34 wherein the time-dependent signal data include a set of peaks that are respectively associated with different time-of-flight values, or valves derived from time-of-flight values, and wherein the time-dependent scaling function scales the peaks in the set of peaks using expected widths of peaks at the time-of-flight values, or values derived from time-of-flight values. 42. The mass spectrometer system of claim 34 wherein the time-dependent signal data include a set of peaks that are respectively associated with different time-of-flight values, or values derived from time-of-flight values, and wherein the time-dependent scaling function scales the peaks in the set of peaks using measured widths of peaks at the time-of-flight values, or values derived from time-of-flight values. 43. The mass spectrometer system of claim 34 wherein the ion detector exhibits decreasing conversion efficiency as a function of increasing mass-to-charge ratio, and wherein the time-dependent scaling function is based on the conversion efficiency. 44. The mass spectrometer system of claim 34 wherein the mass spectrometer system includes a laser desorption/ionization mass spectrometer. 45. The mass spectrometer system of claim 34 wherein the digital computer is further configured to process the time-dependent signal data according to the steps of determining and subtracting an offset from the time-dependent signal data. 46. The mass spectrometer system of claim 34 wherein determining the offset includes analyzing only the time-dependent signal data in to last 50% or less of a time period over which the time-dependent signal is measured. 47. The mass spectrometer of system claim 34 wherein the digital computer is further configured to process the time-dependent signal data according to the step of digitally filtering the data with a filter having a time-dependent bandwidth. 48. The mass spectrometer system of claim 34 wherein digitally filtering the data with a filter having a time-dependent bandwidth includes:(i) producing a first subset of filtered data using a first filter having a first bandwidth; and(ii) producing a second subset of filtered data using a second filter having a second bandwidth. 49. The mass spectrometer system of claim 34 wherein the digital computer is further configured to process the time dependent signal data according to the steps of digitially filtering the data with a filter, wherein coefficients of the filter are based on a Gaussian function.