Methods and apparatuses for portable mass spectrometry are disclosed. The apparatuses comprise at least one source of ionized analyte, at least one frequency scanning subsystem, at least one detector, and optionally at least one vacuum pump, and are portable. In some embodiments, the apparatuses comprise multiple sources of ionized analyte and/or are configured to obtain mass spectra of a large analyte, such as analyte with an m/z ratio of at least 105, or analyte with a molecular weight of at least 105 Da, as well as mass spectra of small molecule analyte. In some embodiments, the methods comprise obtaining mass spectra with a portable apparatus described above.