Description Usage Arguments Examples
Create an HTML file containing FastQC reports of one or multiple files. Inputs can be either a directory containing multiple FastQC reports or a single sample FastQC report.
1 2 |
qc.path |
path to the FastQC reports. Allowed values include:
|
result.file |
path to the result file prefix (e.g., path/to/qc-result). Don't add the file extension. |
experiment |
text specifying a short description of the experiment. For example experiment = "RNA sequencing of colon cancer cell lines". |
interpret |
logical value. If TRUE, adds the interpretation of each module. |
template |
a character vector specifying the path to an Rmd template. file. |
preview |
logical value. If TRUE, shows a preview of the report. |
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 | ## Not run:
# Demo QC Directory
qc.path <- system.file("fastqc_results", package = "fastqcr")
qc.path
# List of files in the directory
list.files(qc.path)
# Multi QC report
qc_report(qc.path, result.file = "~/Desktop/result")
# QC Report of one sample with plot interpretation
qc.file <- system.file("fastqc_results", "S1_fastqc.zip", package = "fastqcr")
qc_report(qc.file, result.file = "~/Desktop/result",
interpret = TRUE)
## End(Not run)
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