Function to perform meta analysis for HIPC ImmuneSignatures Project
1 2 3 | meta_analysis(geneSetDB, rds_data_dir, cohort, FDR.cutoff = 0.5,
pvalue.cutoff = 0.01, endPoint = "fc_res_max_d30", adjusted = F,
baselineOnly = T, indiv_rds = F, markdown = F, output_dir)
|
geneSetDB |
table defining gene sets |
rds_data_dir |
Directory holding eset objects as rds files |
cohort |
Study cohort, young or old |
FDR.cutoff |
Cutoff for q-values in selecting significant gene sets |
pvalue.cutoff |
cutoff for p-values in selecting significant gene sets |
endPoint |
HAI table column used for categorizing response |
adjusted |
Use age-adjusted gene expression values, default = FALSE |
baselineOnly |
Use only day zero gene expression values, default = TRUE |
indiv_rds |
Output individual rds files for each discovery study, default = FALSE |
markdown |
Set output to go directly to screen for markdown files, default = FALSE |
output_dir |
Output directory |
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.