README.md

In AleSR13/refsampr: Making QC report from Reference Samples (analyzed with Juno pipeline)

refsampr

The goal of refsamp is to make plots for tracking the quality of reference samples in a sequencing facility (WGS). It is tailor-made for the RIVM, especially to be used directly on the output from the Juno pipeline (provided that the date in the format ‘yymmdd’ is included in the outpur directory from Juno). The package can be expanded for external use.

Installation

You can install the development version from GitHub with:

# install.packages("devtools")
devtools::install_github("AleSR13/refsampr")

Example

This is a basic example which shows you how to solve a common problem:

library(refsamp)

make_refsamp_report("210120_Juno_pipeline_results",
                    output_report = "out/report.html",
                    history_data = "history_data.csv" )

AleSR13/refsampr documentation built on May 30, 2022, 5:42 a.m.