WebNov 10, 2024 · A common bioinformatics task in single-cell data analysis is to purify a cell type or cell population of interest from heterogeneous datasets. Here we present scGate, … WebMarker-based purification of cell types from heterogeneous single-cell RNA-seq datasets.

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Check out this scGate demo for a reproducible analysis, construction of hierarchical gating models, tools for performance evaluation and other advanced features. More demos for running scGate on different single-cell modalities are available at scGate.demo repository. See more A database of gating models for scGate is available on scGate_models and can be loaded using get_scGateDB() The first time you run get_scGateDB()the database will be downloaded … See more Massimo Andreatta, Ariel J Berenstein, Santiago J Carmona, scGate: marker-based purification of cell types from heterogeneous single … See more scGate can also be used a cell type classifier, to annotate multiple cell types in a dataset. To annotate a dataset with marker-based cell … See more scGate can be applied to modalities other than RNA-seq, such as ATAC-seq (scATAC-seq demo) and antibody-derived tags (ADT) (CITE-seq demo). See more WebLoad scGate model database Description. Download, update or load local version of the scGate model database. These are stored in a GitHub repository, from where you can … security on apple iphone

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WebDec 20, 2024 · A common bioinformatics task in single-cell data analysis is to purify a cell type or cell population of interest from heterogeneous datasets. 'scGate' automatizes … WebMore complex GMs can be constructed in a hierarchical fashion, akin to gating strategies employed in flow cytometry. 'scGate' evaluates the strength of signature marker expression in each cell using the rank-based method 'UCell', and then performs k-nearest neighbor (kNN) smoothing by calculating the mean 'UCell' score across neighboring cells. kNN-smoothing … WebJan 3, 2024 · A common bioinformatics task in single-cell data analysis is to purify a cell type or cell population of interest from heterogeneous datasets. 'scGate' automatizes … purvis industries waxahachie tx