render_report {ELMER} | R Documentation

## Build report for TCGA.pipe function

### Description

Build HTML report

### Usage

    render_report(
      title = "Report",
      mae,
      group.col,
      group1,
      group2,
      direction,
      dir.out,
      genome = "hg38",
      mode = "supervised",
      minSubgroupFrac = "20%",
      minMetdiff = "0.3",
      metfdr = "0.01",
      permu = "10000",
      rawpval = "0.01",
      pe = "0.01",
      nprobes = "10",
      lower.OR = "1.1",
      out_file = file.path(getwd(), "report.html")
    )

### Arguments

`title` | HTML report title
`mae` | Absolute path to the mae used in the analysis
`group.col` | Group col
`group1` | Group 1
`group2` | Group 2
`direction` | direction used in the analysis
`dir.out` | Absolute path to folder with results. dir.out used in the analysis
`genome` | Genome of reference used in the analysis
`mode` | mode used in the analysis
`minSubgroupFrac` | minSubgroupFrac used in the analysis
`minMetdiff` | minMetdiff used in the analysis
`metfdr` | metfdr used in the analysis
`permu` | permu used in the analysis
`rawpval` | rawpval used in the analysis
`pe` | pe used in the analysis
`nprobes` | nprobes used in the analysis
`lower.OR` | lower.OR used in the analysis
`out_file` | Output file name (i.e report.html)

### Examples

    ## Not run:
    render_report(group.col = "TN",
                  group1 = "Tumor",
                  group2 = "Normal",
                  dir.out = "~/paper_elmer/Result/BRCA/TN_Tumor_vs_Normal/hypo/",
                  direction = "hypo",
                  mae = "~/paper_elmer/Result/BRCA/BRCA_mae_hg38.rda")

    ## End(Not run)

[Package ELMER version 2.11.1 Index]