compute_IFNy: Compute IFNy signature (IFNy) score
In olapuentesantana/easier: Estimate Systems Immune Response from RNA-seq data
compute_IFNy R Documentation
Compute IFNy signature (IFNy) score
Description
Calculates IFNy signature score as the average expression
of its signature genes, as defined in Ayers et al., J.
Clin. Invest, 2017.
Usage
compute_IFNy(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 IFNy
score in a column.
References
Ayers, M., Lunceford, J., Nebozhyn, M., Murphy,
E., Loboda, A., Kaufman, D.R., Albright, A., Cheng, J.D.,
Kang, S.P., Shankaran, V., et al. (2017). IFN-y-related mRN
A profile predicts clinical response to PD-1 blockade.
J. Clin. Invest. 127, 2930–2940.
https://doi.org/10.1172/JCI91190.
olapuentesantana/easier documentation built on Feb. 25, 2024, 3:39 p.m.
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| compute_IFNy | R Documentation |
Compute IFNy signature (IFNy) score
Description
Calculates IFNy signature score as the average expression of its signature genes, as defined in Ayers et al., J. Clin. Invest, 2017.
Usage
compute_IFNy(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 IFNy score in a column.
References
Ayers, M., Lunceford, J., Nebozhyn, M., Murphy, E., Loboda, A., Kaufman, D.R., Albright, A., Cheng, J.D., Kang, S.P., Shankaran, V., et al. (2017). IFN-y-related mRN A profile predicts clinical response to PD-1 blockade. J. Clin. Invest. 127, 2930–2940. https://doi.org/10.1172/JCI91190.
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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