GitHub - systemPipeR/SPdenovo: Workflow Template (original) (raw)

SPdenovo

Lifecycle: experimental Project Status: Active – The project has reached a stable, usable state and is being actively developed.

🚧 Under Development!

This pipeline is currently under development and does not have a stable release yet.

Installation

To obtain the systemPipeR and systemPipeRdata, please run as follow:

if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")
BiocManager::install("systemPipeR")
BiocManager::install("systemPipeRdata")

Usage

To test workflows quickly or design new ones from existing templates, users can generate with a single command workflow instances fully populated with sample data and parameter files required for running a chosen workflow.

Use git or git-bash.exe (Windows) to download the template and run

git clone https://github.com/systemPipeR/SPdenovo.git
cd SPdenovo

To init the workflow management instance, run

library("systemPipeR") sal <- SPRproject() sal <- importWF(sal, file_path = "SPdenovo.Rmd")