Welcome to STalign’s documentation!
- STalign
- Tutorials
- Aligning two coronal sections of adult mouse brain from MERFISH
- Aligning partially matched, serial, single-cell resolution breast cancer spatial transcriptomics data from Xenium
- Aligning single-cell resolution breast cancer spatial transcriptomics data to corresponding H&E staining image from Xenium
- Aligning partially matched coronal sections of adult mouse brain from Xenium and STARmap PLUS
- Aligning adult mouse coronal brain sections with the Allen Brain Altas
- Aligning partial coronal brain sections with the Allen Brain Altas
- Aligning single-cell resolution spatial transcriptomics data to H&E staining image from Visium
- Aligning heart ST data from ISS
- Functions
LDDMM()LDDMM_3D_to_slice()L_T_from_points()analyze3Dalign()build_transform()build_transform3D()clip()download_aba_image_labels()download_aba_ontology()extent_from_x()interp()interp3D()make_scree()normalize()plot_brain_regions()plot_subset_brain_regions()rasterize()rasterizePCA()rasterize_with_signal()saveRasters()to_A()to_A_3D()transform_image_atlas_to_target()transform_image_atlas_with_A()transform_image_target_to_atlas()transform_points_atlas_to_target()transform_points_target_to_atlas()v_to_phii()v_to_phii_3D()