A digital dispense system and methods for preparing samples for analysis. The digital dispense system includes a fluid droplet ejection system housed in a housing unit. The fluid droplet ejection system contains a fluid droplet ejection head and fluid cartridge containing one or more fluids to be dispensed. A cartridge translation mechanism is provided for moving the fluid droplet ejection head and fluid cartridge back and forth over a sample holder in an x direction. A sample tray translation mechanism moves a sample tray back and forth beneath the fluid droplet ejection head and fluid cartridge in a y direction orthogonal to the x direction.