example.model: kmFit example model results
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example.model R Documentation
kmFit example model results
Description
A dataset containing linear mixed effects model results with and without genetic kinship correction. Raw data were obtained from the kimma package.
Usage
example.model
Format
List of 6:
Results for linear mixed effects (lme) or linear mixed effects model with kinship relatedness (lmerel) for ~ virus*asthma + (1|ptID)
-
lme/lmerel A data frame with 1000 rows and 10 columns
- model
character. Model name.
- gene
character. ENSEMBL gene ID.
- variable
character. Variable name.
- estimate
numeric. Model estimate, i.e. log fold change.
- pval
numeric. Significance estimate.
- FDR
numeric. FDR corrected signficant estimate.
- hgnc_symbol
character. Current HUGO/HGNC gene symbol.
- Previous symbols
comma separated character. Previous HUGO/HGNC gene symbols, if any.
- Alias symbols
comma separated character. Alias HUGO/HGNC gene symbols, if any.
- gene_biotype
character. Gene biotype. All protein coding in this data set.
-
lme.contrast/lmerel.contrast A data frame with 8000 rows and 15 columns
- model
character. Model name.
- gene
character. ENSEMBL gene ID.
- variable
character. Variable name.
- contrast_ref
character. Model name.
- contrast_lvl
character. Model name.
- estimate
numeric. Model estimate, i.e. log fold change.
- pval
numeric. Significance estimate.
- FDR
numeric. FDR corrected signficant estimate.
- std.error
numeric. Dtandard error.
- df
numeric. Degrees of freedom.
- statistic
numeric. T statistic.
- hgnc_symbol
character. Current HUGO/HGNC gene symbol.
- Previous symbols
comma separated character. Previous HUGO/HGNC gene symbols, if any.
- Alias symbols
comma separated character. Alias HUGO/HGNC gene symbols, if any.
- gene_biotype
character. Gene biotype. All protein coding in this data set.
-
lme.fit/lmerel.fit A data frame with 1000 rows and 11 columns
- model
character. Model name.
- gene
character. ENSEMBL gene ID.
- sigma
numeric. Estimated standard deviation of the errors, ie residual standard deviation.
- AIC
numeric. Akaike information criterion.
- BIC
numeric. Bayesian information criterion.
- Rsq
numeric. R-squared.
- adj_Rsq
numeric. Adjusted R-squared.
- hgnc_symbol
character. Current HUGO/HGNC gene symbol.
- Previous symbols
comma separated character. Previous HUGO/HGNC gene symbols, if any.
- Alias symbols
comma separated character. Alias HUGO/HGNC gene symbols, if any.
- gene_biotype
character. Gene biotype. All protein coding in this data set.
Source
https://github.com/altman-lab/P259_pDC_public
References
Dill-McFarland et al. 2021. Eosinophil-mediated suppression and Anti-IL-5 enhancement of plasmacytoid dendritic cell interferon responses in asthma. J Allergy Clin Immunol. In revision
BIGslu/BIGpicture documentation built on Oct. 14, 2024, 9:30 p.m.
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| example.model | R Documentation |
kmFit example model results
Description
A dataset containing linear mixed effects model results with and without genetic kinship correction. Raw data were obtained from the kimma package.
Usage
example.model
Format
List of 6:
Results for linear mixed effects (lme) or linear mixed effects model with kinship relatedness (lmerel) for ~ virus*asthma + (1|ptID)
-
lme/lmerel A data frame with 1000 rows and 10 columns
- model
character. Model name.
- gene
character. ENSEMBL gene ID.
- variable
character. Variable name.
- estimate
numeric. Model estimate, i.e. log fold change.
- pval
numeric. Significance estimate.
- FDR
numeric. FDR corrected signficant estimate.
- hgnc_symbol
character. Current HUGO/HGNC gene symbol.
- Previous symbols
comma separated character. Previous HUGO/HGNC gene symbols, if any.
- Alias symbols
comma separated character. Alias HUGO/HGNC gene symbols, if any.
- gene_biotype
character. Gene biotype. All protein coding in this data set.
-
lme.contrast/lmerel.contrast A data frame with 8000 rows and 15 columns
- model
character. Model name.
- gene
character. ENSEMBL gene ID.
- variable
character. Variable name.
- contrast_ref
character. Model name.
- contrast_lvl
character. Model name.
- estimate
numeric. Model estimate, i.e. log fold change.
- pval
numeric. Significance estimate.
- FDR
numeric. FDR corrected signficant estimate.
- std.error
numeric. Dtandard error.
- df
numeric. Degrees of freedom.
- statistic
numeric. T statistic.
- hgnc_symbol
character. Current HUGO/HGNC gene symbol.
- Previous symbols
comma separated character. Previous HUGO/HGNC gene symbols, if any.
- Alias symbols
comma separated character. Alias HUGO/HGNC gene symbols, if any.
- gene_biotype
character. Gene biotype. All protein coding in this data set.
-
lme.fit/lmerel.fit A data frame with 1000 rows and 11 columns
- model
character. Model name.
- gene
character. ENSEMBL gene ID.
- sigma
numeric. Estimated standard deviation of the errors, ie residual standard deviation.
- AIC
numeric. Akaike information criterion.
- BIC
numeric. Bayesian information criterion.
- Rsq
numeric. R-squared.
- adj_Rsq
numeric. Adjusted R-squared.
- hgnc_symbol
character. Current HUGO/HGNC gene symbol.
- Previous symbols
comma separated character. Previous HUGO/HGNC gene symbols, if any.
- Alias symbols
comma separated character. Alias HUGO/HGNC gene symbols, if any.
- gene_biotype
character. Gene biotype. All protein coding in this data set.
Source
https://github.com/altman-lab/P259_pDC_public
References
Dill-McFarland et al. 2021. Eosinophil-mediated suppression and Anti-IL-5 enhancement of plasmacytoid dendritic cell interferon responses in asthma. J Allergy Clin Immunol. In revision
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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