get_homologues-est

Release 20180103 (v3.1.0) ships with the following changes:

added hclustering of ANdist matrix in plot_matrix_heatmap.sh for convenient cluster delimitations at distance cutoffs of 6,5,4 which correspond to ANI values of 94%, 95% and 96%, respectively
compare_clusters.pl -m now produces also pangenome CSV file for Scoary GWAS analyses with Fisher's Exact test
updated manuals with option to compute cluster intersection matrices with parse_pangenome_matrix -x
explained transposed CSV pangenome matrix for software Scoary in manual
added option 'force' to install.pl so that it can install with no supervision
added option 'no_databases' to install.pl for building docker images
removes the invariant (core-genome) and singleton (cloud-genome) columns before computing distances @ hcluster_matrix.sh
updated example figure created with plot_matrix_heatmap.sh in the manual
renamed hcluster_matrix.sh to hcluster_pangenome_matrix.sh
added links to GET_PHYLOMARKERS