Starting with FFPE blocks or sections or fresh frozen tissues on glass slides, with tissue stained and imaged using immunofluorescence or H & E in standard histology workflow for quality screening or other information. After probe hybridization, the section is transferred to the Visium capture slide 11 x 11mm workspace using the CytAssist, probes are extended and then sequenced, pairing the spatial and expression information streams. Workflow enables standard clinical slide tissue sections to be repurposed for spatial information with a resolution of several cells per Visium slide dot array.