compute_Roh_IS: Compute Roh immune score (Roh_IS)
In olapuentesantana/easier: Estimate Systems Immune Response from RNA-seq data
View source: R/compute_Roh_IS.R
compute_Roh_IS R Documentation
Compute Roh immune score (Roh_IS)
Description
Calculates Roh_IS score as the geometric-mean
of its signature genes, defined in Roh et al.,
Sci. Transl. Med., 2017.
Usage
compute_Roh_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 Roh_IS score
in a column.
References
Roh, W., Chen, P.-L., Reuben, A., Spencer, C.N.,
Prieto, P.A., Miller, J.P., Gopalakrishnan, V., Wang, F.,
Cooper, Z.A., Reddy, S.M., et al. (2017). Integrated molecular
analysis of tumor biopsies on sequential CTLA-4 and PD-1 blockade
reveals markers of response and resistance. Sci. Transl. Med. 9.
https://doi.org/10.1126/scitranslmed.aah3560.
olapuentesantana/easier documentation built on Feb. 25, 2024, 3:39 p.m.
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View source: R/compute_Roh_IS.R
| compute_Roh_IS | R Documentation |
Compute Roh immune score (Roh_IS)
Description
Calculates Roh_IS score as the geometric-mean of its signature genes, defined in Roh et al., Sci. Transl. Med., 2017.
Usage
compute_Roh_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 Roh_IS score in a column.
References
Roh, W., Chen, P.-L., Reuben, A., Spencer, C.N., Prieto, P.A., Miller, J.P., Gopalakrishnan, V., Wang, F., Cooper, Z.A., Reddy, S.M., et al. (2017). Integrated molecular analysis of tumor biopsies on sequential CTLA-4 and PD-1 blockade reveals markers of response and resistance. Sci. Transl. Med. 9. https://doi.org/10.1126/scitranslmed.aah3560.
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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