├── LICENSE.txt ├── README.md ├── matlab ├── Colorseq2Str.m ├── DFTApply2D.m ├── DFTApply3D.m ├── DFTRegister2D.m ├── DFTRegister3D.m ├── DecodeBases.m ├── EncodeSOLID.m ├── EqualizeHist3D.m ├── ExtractColorSeq.m ├── FindAllSpots3D.m ├── FindSpots3D.m ├── GenerateBarcodeColorSeq.m ├── GetBaseSeq.m ├── GetSeqIdx.m ├── JointRegister3D.m ├── JointRegister3DVols.m ├── LoadCodebook.m ├── LoadImageStacks.m ├── LoadMaxProjImages.m ├── LoadMultipageTiff.m ├── LoadRegistered.m ├── ManuallyIdentifyCells.m ├── RegisterNissl.m ├── STARMapDataset.m ├── SaveColorMax.m ├── SaveColorMaxStacks.m ├── SaveRegistered.m ├── Str2Colorseq.m └── textprogressbar.m └── python ├── analysis.py ├── coding.py ├── examples ├── example_analyze_experiment.ipynb └── example_load_experiment.ipynb ├── reads_to_cells.py └── viz.py /LICENSE.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/weallen/STARmap/HEAD/LICENSE.txt 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