ABSTRACT We present Chlamydia trachomatis Genome Assembly Pipeline (CtGAP) 2.0, an enhanced version of CtGAP, that provides a seamless installation process—eliminating the need for multiple standalone tools—and a streamlined command-line interface, introduces automatic assembly quality scoring and selection for downstream analyses, and integrates chromosome and plasmid typing along with phylogenomics.
Olagoke et al. (Tue,) studied this question.