Code cleaning, added command line options to tweak filtering parameters and enable possibility to skip some filtering steps
Code cleaning, added command line options to tweak filtering parameters and enable possibility to skip some filtering steps

etapanari/ensembl-compara,dbolser-ebi/ensembl-compara,Ensembl/ensembl-compara,Ensembl/ensembl-compara,Ensembl/ensembl-compara,dbolser-ebi/ensembl-compara,kumarsaurabh20/ensembl-compara,kumarsaurabh20/ensembl-compara,danstaines/ensembl-compara,dbolser-ebi/ensembl-compara,etapanari/ensembl-compara,danstaines/ensembl-compara,etapanari/ensembl-compara,Ensembl/ensembl-compara,kumarsaurabh20/ensembl-compara,Ensembl/ensembl-compara,danstaines/ensembl-compara,kumarsaurabh20/ensembl-compara,danstaines/ensembl-compara,Ensembl/ensembl-compara,ckongEbi/ensembl-compara,danstaines/ensembl-compara,ckongEbi/ensembl-compara,Ensembl/ensembl-compara,ckongEbi/ensembl-compara,Ensembl/ensembl-compara,etapanari/ensembl-compara