association_analysis: Association analysis of SEMseeker's results

In drake69/semseeker: Stochastic Epigenetic Mutations SEM Seeker

Association analysis of SEMseeker's results

Description

Association analysis of SEMseeker's results

Usage

association_analysis(
  inference_details,
  result_folder,
  maxResources = 90,
  parallel_strategy = "multisession",
  ...
)

Arguments

inference_details	independent variable: deve essere nalla sample sheet passata a semseeker quando lo abbiamo eseguito la prima volta tipo di regressioni: gaussian, poisson, binomial,quantreg_tau_runs(both as number) eg quantreg_0.25_2000 tipi di test: wilcoxon, stats::t.test, tipi di correlazioni: pearson, kendall, spearman MUTATIONS_* ~ tcdd_mother + exam_age transformation to be applied to dependent variable (mutations and lesions): scale, log, log2, log10, exp, none, quantile_quantiles(as number) eg quantile_3 depth analysis: 1: sample level 2: type level (gene, DMR, cpgisland) (includes 1) 3: genomic area: gene, body, gene tss1550, gene whole, gene tss200, (includes 1 and 2) filter_p_value report after adjusting saves only significant nominal p-value
result_folder	where semseeker's results are stored, the root folder
maxResources	percentage of max system's resource to use
parallel_strategy	which strategy to use for parallel execution see future vignete: possible values, none, multisession,sequential, multicore, cluster
...	other options to filter elaborations

drake69/semseeker documentation built on Sept. 17, 2023, 12:22 a.m.