# Run main pipeline

<table data-view="cards"><thead><tr><th></th><th></th><th></th><th data-hidden data-card-cover data-type="image">Cover image</th></tr></thead><tbody><tr><td><a href="run-main-pipeline/stereo-seq-ff"><strong>Stereo-seq FF</strong></a></td><td>Learn how to perform SAW count on fresh frozen (FF) samples</td><td></td><td><a href="https://2127398712-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FEJfu1dx8qHVkvX5muz7N%2Fuploads%2FGyZqK6FenuMmrxotWvgH%2FSAW_counf_for_FF_8.2%404x.png?alt=media&#x26;token=d4975286-1a83-4196-8a10-6908aef13d86">SAW_counf_for_FF_8.2@4x.png</a></td></tr><tr><td><a href="run-main-pipeline/stereo-seq-ffpe"><strong>Stereo-seq FFPE</strong></a></td><td>Learn how to perform SAW count on formalin-fixed paraffin-embedded (FFPE) samples</td><td></td><td><a href="https://2127398712-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FEJfu1dx8qHVkvX5muz7N%2Fuploads%2FDGn7GZ3ExOEotFMpP3kV%2FSAW_counf_for_FFPE_8.2%404x.png?alt=media&#x26;token=ad9e0965-53f9-4719-8540-892815cdb2fc">SAW_counf_for_FFPE_8.2@4x.png</a></td></tr><tr><td><a href="run-main-pipeline/stereo-cite-ff"><strong>Stereo-CITE FF</strong></a></td><td>Learn how to perform SAW count on Stereo-CITE fresh frozen (FF) samples by transcriptome and multiplex protein simultaneous detection.</td><td></td><td><a href="https://2127398712-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FEJfu1dx8qHVkvX5muz7N%2Fuploads%2FM3b0Id2GhNXxB0YmKsqY%2FSAW_counf_for_CITE_FF_8.2%404x.png?alt=media&#x26;token=0b839eb6-4e7e-471a-bde1-91a0d8c5cc67">SAW_counf_for_CITE_FF_8.2@4x.png</a></td></tr></tbody></table>