README.md

In daewoooo/SaaRclust: R Package to cluster long sequencing reads into chromosomes to facilitate de novo genome assembly.

SaaRclust

R Package to cluster long sequencing reads into chromosomes to facilitate de novo genome assembly.

Collaborators: David Porubsky, Maryam Ghareghani and Tobias Marschall

Installation

Development version from Github

To install the development version from Github, follow the steps given below. The installation has only been tested on Ubuntu so far, if you need to install on Windows or Mac additional steps might be necessary (e.g. installation of Rtools from https://cran.r-project.org/bin/windows/Rtools/)

1. Install a recent version of R (>=3.3.0) from https://www.r-project.org/
2. Optional: For ease of use, install Rstudio from https://www.rstudio.com/

3. Open R and install all dependencies. Please ensure that you have writing permissions to install packages. Execute the following lines one by one:

   install.packages("devtools") source("http://bioconductor.org/biocLite.R") library(devtools) install_github("daewoooo/SaaRclust") Or alternatively if the above line doesn't work: install_git("git://github.com/daewoooo/SaaRclust.git", branch = "master")

Report Errors

If you encounter errors of any kind, please report an issue here.

NOTE

The SaaRclust package is currently under development and contains unpublished work. Any usage for publishing is strictly prohibited without permission.

daewoooo/SaaRclust documentation built on May 28, 2019, 7:50 p.m.