compute_Davoli_IS: Compute Davoli immune signature (Davoli_IS) score
In olapuentesantana/easier: Estimate Systems Immune Response from RNA-seq data
View source: R/compute_Davoli_IS.R
compute_Davoli_IS R Documentation
Compute Davoli immune signature (Davoli_IS) score
Description
Calculates Davoli_IS score as the average of the expression
of its signature genes after applying rank normalization, as
defined in Davoli et al., Science, 2017.
Usage
compute_Davoli_IS(matches, RNA_tpm)
Arguments
matches
numeric vector indicating the index of signature
genes in RNA_tpm.
RNA_tpm
data.frame containing TPM values with HGNC symbols
in rows and samples in columns.
Value
A numeric matrix with samples in rows and Davoli_IS score
in a column.
References
Davoli, T., Uno, H., Wooten, E.C., and Elledge,
S.J. (2017). Tumor aneuploidy correlates with markers of
immune evasion and with reduced response to immunotherapy.
Science 355. https://doi.org/10.1126/science.aaf8399.
olapuentesantana/easier documentation built on Feb. 25, 2024, 3:39 p.m.
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View source: R/compute_Davoli_IS.R
| compute_Davoli_IS | R Documentation |
Compute Davoli immune signature (Davoli_IS) score
Description
Calculates Davoli_IS score as the average of the expression of its signature genes after applying rank normalization, as defined in Davoli et al., Science, 2017.
Usage
compute_Davoli_IS(matches, RNA_tpm)
Arguments
matches |
numeric vector indicating the index of signature
genes in |
RNA_tpm |
data.frame containing TPM values with HGNC symbols in rows and samples in columns. |
Value
A numeric matrix with samples in rows and Davoli_IS score in a column.
References
Davoli, T., Uno, H., Wooten, E.C., and Elledge, S.J. (2017). Tumor aneuploidy correlates with markers of immune evasion and with reduced response to immunotherapy. Science 355. https://doi.org/10.1126/science.aaf8399.
R Package Documentation
Browse R Packages
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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