What is ShoRAH
ShoRAH is an open source project for the analysis of next generation sequencing data. It is designed to analyse genetically heterogeneous samples. Its tools are written in different programming languages and provide alignment, error correction, haplotype reconstruction and estimation of the frequency of the different genetic variants present in a mixed sample.
You can start from reading some Background. See also References.
ShoRAH has its own page at the Beerenwinkel Computational Biology group, where you can find the old version of the software. The edge repository page is on github, and the new documentation is here.
What you need to know:
- a basic knowledge of command-line environment (how to run a program from command line, copy/rename/move files, what is a path, what is the difference between an executable and a non-executable file etc.),
- how to install a program with the configure/make/install procedure,
- a minimal experience with next generation sequencing data.
This aims at explaining how to install and run ShoRAH. We hope that when the installation is done, it takes < 30 minutes to learn how to use it.