COVID-profiler: a webserver for the analysis of SARS-CoV-2 sequencing data

BMC Bioinformatics

Jody Phelan¹  Wouter Deelder¹  Susana Campino¹  Martin L. Hibberd¹  Taane G. Clark¹  Daniel Ward¹ 

[1] Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine;

关键词: NGS;    Sequencing;    Sars-Cov-2;    Phylogenetics;   

DOI  :  10.1186/s12859-022-04632-y

来源: DOAJ

【 摘 要 】

Abstract Background SARS-CoV-2 virus sequencing has been applied to track the COVID-19 pandemic spread and assist the development of PCR-based diagnostics, serological assays, and vaccines. With sequencing becoming routine globally, bioinformatic tools are needed to assist in the robust processing of resulting genomic data. Results We developed a web-based bioinformatic pipeline (“COVID-Profiler”) that inputs raw or assembled sequencing data, displays raw alignments for quality control, annotates mutations found and performs phylogenetic analysis. The pipeline software can be applied to other (re-) emerging pathogens. Conclusions The webserver is available at http://genomics.lshtm.ac.uk/ . The source code is available at https://github.com/jodyphelan/covid-profiler .

【 授权许可】

Unknown