CtGAP 2.0: enhanced genome assembly, strain resolution, and phylogenomics for Chlamydia trachomatis
Olusola Olagoke, Timothy D. Read, Deborah Dean
TL;DR
CtGAP 2.0 is an improved tool for analyzing Chlamydia trachomatis genomes, offering better assembly, strain resolution, and phylogenomics.
Contribution
CtGAP 2.0 introduces a unified installation, automatic quality scoring, and integrated typing and phylogenomics for Chlamydia trachomatis.
Findings
CtGAP 2.0 simplifies the workflow by eliminating the need for multiple standalone tools.
The tool includes automatic assembly quality scoring to improve downstream analysis accuracy.
It integrates chromosome and plasmid typing with phylogenomics for comprehensive genomic analysis.
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.
Genes, proteins, chemicals, diseases, species, mutations and cell lines named across the full text — each resolved to its canonical identifier and authoritative record.
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Taxonomy
TopicsReproductive tract infections research · Plant Taxonomy and Phylogenetics · Plant and fungal interactions