Fig. 2
From: CloVR-Comparative: automated, cloud-enabled comparative microbial genome sequence analysis pipeline
Overview and flowchart of CloVR-Comparative. Input data in the form of annotated genomes in GenBank format is first validated and converted into other file formats, then used in whole-genome alignment (WGA) with Mugsy and alignment of translated CDS with MUSCLE to determine COGs. WGAs are used to identify SNPs and to predict phylogenetic relationships based on core genomic regions with Phylomark. From the results individual circular plots are generated for each input genome. The analysis output is loaded into a Sybil database to provide searches of comparative genome data in a web browser, summary and detailed results reports, and tree and circular figures