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In scaper: Single Cell Transcriptomics-Level Cytokine Activity Prediction and Estimation
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scaper: Single Cell Transcriptomics-Level Cytokine Activity Prediction and Estimation
Description
Generates cell-level cytokine activity estimates using relevant information from gene sets constructed with the 'CytoSig' and the 'Reactome' databases and scored using the modified 'Variance-adjusted Mahalanobis (VAM)' framework for single-cell RNA-sequencing (scRNA-seq) data. 'CytoSig' database is described in: Jiang at al., (2021) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1038/s41592-021-01274-5")}. 'Reactome' database is described in: Gillespie et al., (2021) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1093/nar/gkab1028")}. The 'VAM' method is outlined in: Frost (2020) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1093/nar/gkaa582")}.
Author(s)
Maintainer: Azka Javaid azka.javaid.gr@dartmouth.edu
Authors:
H. Robert Frost hildreth.r.frost@dartmouth.edu
scaper documentation built on April 17, 2025, 1:07 a.m.
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| scaper-package | R Documentation |
scaper: Single Cell Transcriptomics-Level Cytokine Activity Prediction and Estimation
Description
Generates cell-level cytokine activity estimates using relevant information from gene sets constructed with the 'CytoSig' and the 'Reactome' databases and scored using the modified 'Variance-adjusted Mahalanobis (VAM)' framework for single-cell RNA-sequencing (scRNA-seq) data. 'CytoSig' database is described in: Jiang at al., (2021) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1038/s41592-021-01274-5")}. 'Reactome' database is described in: Gillespie et al., (2021) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1093/nar/gkab1028")}. The 'VAM' method is outlined in: Frost (2020) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1093/nar/gkaa582")}.
Author(s)
Maintainer: Azka Javaid azka.javaid.gr@dartmouth.edu
Authors:
H. Robert Frost hildreth.r.frost@dartmouth.edu
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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