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Single-cell architecture surgery (scArches) is a package for reference-based analysis of single-cell data. scArches allows your single-cell query data to be analyzed by integrating it into a reference atlas. By mapping your data into an integrated reference you can transfer cell-type annotation from reference to query, identify disease states by mapping to healthy atlas, and advanced applications such as imputing missing data modalities or spatial locations.
Features
- Annotating a single-cell dataset using a reference atlas
- Identify novel cell states present in your data by mapping to an atlas
- Multimodal single-cell atlases
- Data integration/batch correction
- Spatial transcriptomics
- Querying gene programs in single-cell atlases
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Data IntegrationLicense
BSD LicenseFollow scArches
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