Changes

=== Why do we use GotCloud/GenomeSTRiP pipeline instead of directly using GenomeSTRiP itself? ===

=== Why do we use GotCloud/GenomeSTRiP pipeline instead of directly using GenomeSTRiP itself? ===

# The main purpose of GotCloud pipelines is to provide a pipeline for users with limited knowledge and experience with high performance computing environment.  

# The main purpose of GotCloud pipelines is to provide a pipeline for users with limited knowledge and experience with high performance computing environment.  

** Although GenomeSTRiP provides a reasonably straightforward pipeline, it still requires a detailed understanding of GATK framework and the details of parameter.

#* Although GenomeSTRiP provides a reasonably straightforward pipeline, it still requires a detailed understanding of GATK framework and the details of parameter.

** GotCloud aims to provide more simpler way to run these procedure  

#* GotCloud aims to provide more simpler way to run these procedure  

# GotCloud supports a variety of cluster environment that is not currently supported by GenomeSTRiP

# GotCloud supports a variety of cluster environment that is not currently supported by GenomeSTRiP

** GenomeSTRiP is designed based on a framework called Qscript, which provide a nice support for LSF cluster system, but it does not support many other cluster enviroments such as MOSIX or SLURM we use locally.

#* GenomeSTRiP is designed based on a framework called Qscript, which provide a nice support for LSF cluster system, but it does not support many other cluster enviroments such as MOSIX or SLURM we use locally.

# GotCloud also provide a fault-tolerant solution for large-scale jobs.

# GotCloud also provide a fault-tolerant solution for large-scale jobs.

** GotCloud automatically picks up jobs from the point where it failed. This allows easier and simpler run against potential technical glitches in the system.

#* GotCloud automatically picks up jobs from the point where it failed. This allows easier and simpler run against potential technical glitches in the system.

== Overview of GotCloud/GenomeSTRiP pipeline ==

== Overview of GotCloud/GenomeSTRiP pipeline ==