Updated 22/10/2017
Installation instructions.pdf - Installation instructions for MacOS for the tools used in largeSV_pipeline.sh
LargeSV_pipeline.sh - Executable script for finding large structural variations and outputting a distance tree (computed in R)
collate_output.py - called within largeSV_pipeline.sh to collate output from the various tools into separate .txt files as well as a combined all_data.txt file
dellytree.py - called within largeSV_pipeline.sh to output a matrix (distmat.csv) that is used by largeSVtree.R
largeSVtree.R - called within largeSV_pipeline.sh to produce a jpeg of the final tree calculated using distmat.csv